diff --git a/README.md b/README.md index 11233ee..7138e42 100644 --- a/README.md +++ b/README.md @@ -1,8 +1,8 @@ -# H5N1 within-host diversity in humans and poultry in Cambodia +# Quantifying within-host evolution of H5N1 influenza in humans and poultry in Cambodia -#### Louise H. Moncla1, Trevor Bedford1,2, Philippe Dussart3, Philippe Buchy4, Huachen Zhu5,6, Thomas C. Friedrich7,8, Paul F. Horwood9,10 +#### Louise H. Moncla1, Trevor Bedford1,2, Philippe Dussart3, Srey Viseth Horm3, Sareth Rith3, Philippe Buchy4, Erik A Karlsson3, Lifeng Li5,6, Yongmei Liu5,6, Huachen Zhu5,6, Yi Guan5,6, Thomas C. Friedrich7,8, Paul F. Horwood9,10 1Fred Hutchinson Cancer Research Center, Seattle, Washington, United States, 2University of Washington, Seattle, Washington, United States, 3Virology Unit, Institut Pasteur du Cambodge, Phnom Penh, Cambodia, 4GlaxoSmithKline, Vaccines R&D, Singapore, Singapore,5Joint Influenza Research Centre (SUMC/HKU), Shantou University Medical College, Shantou, People's Republic of China,6State Key Laboratory of Emerging Infectious Diseases/Centre of Influenza Research, School of Public Health, The University of Hong Kong, Hong Kong, SAR, People's Republic of China,7Department of Pathobiological Sciences, University of Wisconsin School of Veterinary Medicine, Madison, WI, United States,8Wisconsin National Primate Research Center, Madison, WI, United States,9Papua New Guinea Institute of Medical Research, Goroka, Paula New Guinea,10Australian Institute of Tropical Health and Medicine, James Cook University, Cairns, Australia. ## Abstract -H5N1 viruses periodically cross species barriers and cause disease in humans. The likelihood that an avian influenza virus will acquire mammalian-adapting mutations and evolve enhanced mammalian transmissibility depends on its ability to acquire and select mutations within hosts during spillover. We use deep sequence data from infected humans and poultry in Cambodia to examine how H5N1 viruses evolve during natural spillover infection. We find that viral populations in both species are characterized by predominantly low-frequency (<10%) variation shaped by a combination of purifying selection and genetic drift. Human samples had a greater number of within-host polymorphisms on average, although the distribution of single nucleotide polymorphism (SNP) frequencies and overall mean SNP frequency was similar in both host species. We detect a handful of mutations in humans at sites explicitly linked to H5N1 mammalian adaptation (PB2 627 Lys, HA 150 Val, and HA 238 Leu), although these mutations were present at low frequencies, despite ≥8 days of infection. Finally, we show that mutations detected within-host are not enriched among viruses that have caused spillover infections in the past. By comparing signatures of diversity among humans and poultry, we show that H5N1 viruses are capable of generating known markers of human adaptation during natural spillover infection. However, a short duration of infection, randomness and purifying selection together severely limit the evolutionary capacity of H5N1 viruses to evolve extensively within human hosts. \ No newline at end of file +Avian influenza viruses (AIVs) periodically cross species barriers and infect humans. The likelihood that an AIV will evolve mammalian transmissibility depends on acquiring and selecting mutations during spillover. We analyze deep sequencing data from infected humans and ducks in Cambodia to examine H5N1 evolution during spillover. Viral populations in both species are predominated by low-frequency (<10%) variation shaped by purifying selection and genetic drift. Viruses from humans contain some human-adapting mutations (PB2 E627K, HA A150V, and HA Q238L), but these mutations remain low-frequency. Within-host variants are not enriched along phylogenetic branches leading to human infections. Our data show that H5N1 viruses generate putative human-adapting mutations during natural spillover infection. However, short infections, randomness, and purifying selection limit the evolutionary capacity of H5N1 viruses within-host. Applying evolutionary methods to sequence data, we reveal a detailed view of H5N1 adaptive potential, and develop a foundation for studying host-adaptation in other zoonotic viruses. diff --git a/data/README.md b/data/README.md index c42f75d..108474f 100644 --- a/data/README.md +++ b/data/README.md @@ -8,7 +8,7 @@ All consensus sequences are available [here](https://github.com/blab/h5n1-cambod ## Within-host data -All within-host variants reported in the manuscript and analyzed are available [here](https://github.com/blab/h5n1-cambodia/blob/master/data/within-host-variants-1%25.txt). This data file includes all variants present at a frequency of at least 1% in all human and duck samples. Fastq files were processed and variants called using [this pipeline](https://github.com/lmoncla/illumina_pipeline), briefly outlined below: +Human reads were removed from all raw fastq files by mapping to the human reference genome GRCh38 with bowtie2. Only unmapped reads were further processed and used for data analysis. The raw fastq files with human reads filtered out are all publicly available in the Sequence Read Archive under the accession number [PRJNA547644](https://www.ncbi.nlm.nih.gov/sra/?term=PRJNA547644), accession numbers SRX5984186-SRX5984198. All within-host variants reported in the manuscript and analyzed are available [here](https://github.com/blab/h5n1-cambodia/blob/master/data/within-host-variants-1%25.txt). This data file includes all variants present at a frequency of at least 1% in all human and duck samples. Fastq files were processed and variants called using [this pipeline](https://github.com/lmoncla/illumina_pipeline), briefly outlined below: 1. Adapter and quality trimming with [Trimmomatic](http://www.usadellab.org/cms/?page=trimmomatic ) 2. Mapping with [bowtie2](http://bowtie-bio.sourceforge.net/bowtie2/index.shtml) diff --git a/figures/figure-1a,b,S3-and-SNP-stats.ipynb b/figures/figure-1a,b,S3-and-SNP-stats.ipynb new file mode 100644 index 0000000..8f96946 --- /dev/null +++ b/figures/figure-1a,b,S3-and-SNP-stats.ipynb @@ -0,0 +1,3425 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "# Figures 1a, and 1b, supplementary 3, and SNP stats: H5N1 within-host variant plots and summary statistics\n", + "\n", + "June 6, 2019\n", + "\n", + "This notebook contains code for producing the following figures and analyses:\n", + "\n", + "**1. Figure 1:** This plot shows all SNPs > 1% in all human and duck samples, faceted by gene. \n", + "\n", + "**2. Supplemental figure 1:** The same as figure 1, but faceted by gene and sample, so each sample's SNPs are plotted independently. \n", + "\n", + "**3. Figure 2:** A frequency spectrum showing the proportion of the total SNPs that fall into each frequency bin (1-10%, 10-20%, etc...).\n", + "\n", + "**4. SNPs statistics:** Calculations for the mean SNP frequency for birds and humans, and the mean number of SNPs per sample for birds and humans, total number of SNPs called, etc.. " + ] + }, + { + "cell_type": "code", + "execution_count": 2, + "metadata": {}, + "outputs": [], + "source": [ + "import sys, subprocess, glob, os, shutil, re, importlib, Bio\n", + "from subprocess import call\n", + "from Bio import SeqIO\n", + "import pandas as pd\n", + "import numpy as np\n", + "from scipy import stats\n", + "import rpy2\n", + "%load_ext rpy2.ipython " + ] + }, + { + "cell_type": "code", + "execution_count": 3, + "metadata": {}, + "outputs": [], + "source": [ + "# define colors \n", + "\n", + "# blue/red scheme 1 (desaturated)\n", + "human_color = \"#C75643\"\n", + "duck_color = \"#545AB7\"\n", + "\n", + "\n", + "# blue/red scheme 1 (desaturated)\n", + "duck_nonsyn_color = \"#545AB7\"\n", + "duck_syn_color = \"#98B4DA\"\n", + "human_nonsyn_color = \"#C75643\"\n", + "human_syn_color = \"#E6B692\"" + ] + }, + { + "cell_type": "code", + "execution_count": 4, + "metadata": {}, + "outputs": [], + "source": [ + "# variant calls file to load in\n", + "variant_calls = \"/Users/lmoncla/src/h5n1-cambodia/data/within-host-variants-1%.txt\"" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Figure 1a: All within-host SNPs " + ] + }, + { + "cell_type": "code", + "execution_count": 5, + "metadata": {}, + "outputs": [ + { + "data": { + "text/html": [ + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "species | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "duck | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "duck | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "duck | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "duck | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "duck | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "species | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "duck | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "duck | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "duck | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "duck | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "duck | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "species | \n", + "color | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "duck | \n", + "duck_synonymous | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "duck | \n", + "duck_synonymous | \n", + "
\n", + " | sample | \n", + "gene | \n", + "reference_position | \n", + "synonymous_nonsynonymous | \n", + "frequency | \n", + "species | \n", + "color | \n", + "
---|---|---|---|---|---|---|---|
0 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "nonsynonymous | \n", + "0.0328 | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "
1 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "nonsynonymous | \n", + "0.2043 | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "
2 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "synonymous | \n", + "0.0455 | \n", + "duck | \n", + "duck_synonymous | \n", + "
3 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "nonsynonymous | \n", + "0.1900 | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "
4 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "synonymous | \n", + "0.0438 | \n", + "duck | \n", + "duck_synonymous | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "species | \n", + "color | \n", + "bin | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "1-10% | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "20-30% | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "duck | \n", + "duck_synonymous | \n", + "1-10% | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "duck | \n", + "duck_nonsynonymous | \n", + "10-20% | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "duck | \n", + "duck_synonymous | \n", + "1-10% | \n", + "
\n", + " | species | \n", + "bin | \n", + "count | \n", + "
---|---|---|---|
0 | \n", + "duck | \n", + "1-10% | \n", + "33 | \n", + "
1 | \n", + "duck | \n", + "10-20% | \n", + "4 | \n", + "
2 | \n", + "duck | \n", + "20-30% | \n", + "3 | \n", + "
3 | \n", + "human | \n", + "1-10% | \n", + "180 | \n", + "
4 | \n", + "human | \n", + "10-20% | \n", + "17 | \n", + "
5 | \n", + "human | \n", + "20-30% | \n", + "7 | \n", + "
6 | \n", + "human | \n", + "30-40% | \n", + "1 | \n", + "
7 | \n", + "human | \n", + "40-50% | \n", + "1 | \n", + "
8 | \n", + "duck | \n", + "30-40 | \n", + "0 | \n", + "
9 | \n", + "duck | \n", + "40-50 | \n", + "0 | \n", + "
10 | \n", + "human | \n", + "40-50 | \n", + "0 | \n", + "
\n", + " | species | \n", + "bin | \n", + "count | \n", + "proportion | \n", + "
---|---|---|---|---|
0 | \n", + "duck | \n", + "1-10% | \n", + "33 | \n", + "0.825000 | \n", + "
1 | \n", + "duck | \n", + "10-20% | \n", + "4 | \n", + "0.100000 | \n", + "
2 | \n", + "duck | \n", + "20-30% | \n", + "3 | \n", + "0.075000 | \n", + "
8 | \n", + "duck | \n", + "30-40 | \n", + "0 | \n", + "0.000000 | \n", + "
9 | \n", + "duck | \n", + "40-50 | \n", + "0 | \n", + "0.000000 | \n", + "
3 | \n", + "human | \n", + "1-10% | \n", + "180 | \n", + "0.873786 | \n", + "
4 | \n", + "human | \n", + "10-20% | \n", + "17 | \n", + "0.082524 | \n", + "
5 | \n", + "human | \n", + "20-30% | \n", + "7 | \n", + "0.033981 | \n", + "
6 | \n", + "human | \n", + "30-40% | \n", + "1 | \n", + "0.004854 | \n", + "
7 | \n", + "human | \n", + "40-50% | \n", + "1 | \n", + "0.004854 | \n", + "
10 | \n", + "human | \n", + "40-50 | \n", + "0 | \n", + "0.000000 | \n", + "
\n", + " | sample | \n", + "bin | \n", + "species | \n", + "synonymous_nonsynonymous | \n", + "
---|---|---|---|---|
0 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "1-10% | \n", + "duck | \n", + "nonsynonymous | \n", + "
1 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "20-30% | \n", + "duck | \n", + "nonsynonymous | \n", + "
2 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "1-10% | \n", + "duck | \n", + "synonymous | \n", + "
3 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "10-20% | \n", + "duck | \n", + "nonsynonymous | \n", + "
4 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "1-10% | \n", + "duck | \n", + "synonymous | \n", + "
\n", + " | sample | \n", + "species | \n", + "bin | \n", + "syn_nonsyn | \n", + "count | \n", + "
---|---|---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "1-10% | \n", + "nonsynonymous | \n", + "34 | \n", + "
1 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "1-10% | \n", + "synonymous | \n", + "16 | \n", + "
2 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "10-20% | \n", + "nonsynonymous | \n", + "1 | \n", + "
3 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "10-20% | \n", + "synonymous | \n", + "1 | \n", + "
4 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "20-30% | \n", + "nonsynonymous | \n", + "1 | \n", + "
\n", + " | sample | \n", + "species | \n", + "bin | \n", + "syn_nonsyn | \n", + "count | \n", + "
---|---|---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "1-10% | \n", + "nonsynonymous | \n", + "34 | \n", + "
1 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "1-10% | \n", + "synonymous | \n", + "16 | \n", + "
2 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "10-20% | \n", + "nonsynonymous | \n", + "1 | \n", + "
3 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "10-20% | \n", + "synonymous | \n", + "1 | \n", + "
4 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "human | \n", + "20-30% | \n", + "nonsynonymous | \n", + "1 | \n", + "
\n", + " | sample | \n", + "species | \n", + "bin | \n", + "syn_nonsyn | \n", + "count | \n", + "proportion | \n", + "
---|---|---|---|---|---|---|
10 | \n", + "A/Cambodia/W0112303/2012 | \n", + "human | \n", + "1-10% | \n", + "nonsynonymous | \n", + "6 | \n", + "0.857143 | \n", + "
12 | \n", + "A/Cambodia/W0112303/2012 | \n", + "human | \n", + "10-20% | \n", + "nonsynonymous | \n", + "1 | \n", + "0.142857 | \n", + "
0 | \n", + "A/Cambodia/W0112303/2012 | \n", + "human | \n", + "20-30% | \n", + "nonsynonymous | \n", + "0 | \n", + "0.000000 | \n", + "
0 | \n", + "A/Cambodia/W0112303/2012 | \n", + "human | \n", + "30-40% | \n", + "nonsynonymous | \n", + "0 | \n", + "0.000000 | \n", + "
0 | \n", + "A/Cambodia/W0112303/2012 | \n", + "human | \n", + "40-50% | \n", + "nonsynonymous | \n", + "0 | \n", + "0.000000 | \n", + "
\n", + " | species | \n", + "bin | \n", + "syn_nonsyn | \n", + "mean_count | \n", + "mean_proportion | \n", + "std_count | \n", + "std_proportion | \n", + "
---|---|---|---|---|---|---|---|
0 | \n", + "duck | \n", + "1-10% | \n", + "nonsynonymous | \n", + "2.6 | \n", + "0.850000 | \n", + "1.140175 | \n", + "0.223607 | \n", + "
1 | \n", + "duck | \n", + "1-10% | \n", + "synonymous | \n", + "3.8 | \n", + "0.838095 | \n", + "1.483240 | \n", + "0.167006 | \n", + "
2 | \n", + "duck | \n", + "10-20% | \n", + "nonsynonymous | \n", + "0.4 | \n", + "0.100000 | \n", + "0.547723 | \n", + "0.136931 | \n", + "
3 | \n", + "duck | \n", + "10-20% | \n", + "synonymous | \n", + "0.4 | \n", + "0.100000 | \n", + "0.547723 | \n", + "0.149071 | \n", + "
4 | \n", + "duck | \n", + "20-30% | \n", + "nonsynonymous | \n", + "0.2 | \n", + "0.050000 | \n", + "0.447214 | \n", + "0.111803 | \n", + "
\n", + " | species | \n", + "bin | \n", + "syn_nonsyn | \n", + "mean_count | \n", + "mean_proportion | \n", + "std_count | \n", + "std_proportion | \n", + "
---|---|---|---|---|---|---|---|
0 | \n", + "human | \n", + "1-10% | \n", + "nonsynonymous | \n", + "12.250 | \n", + "0.873936 | \n", + "12.032694 | \n", + "0.105702 | \n", + "
1 | \n", + "human | \n", + "1-10% | \n", + "synonymous | \n", + "9.875 | \n", + "0.869459 | \n", + "5.591767 | \n", + "0.127899 | \n", + "
2 | \n", + "human | \n", + "10-20% | \n", + "nonsynonymous | \n", + "1.125 | \n", + "0.093804 | \n", + "0.991031 | \n", + "0.081250 | \n", + "
3 | \n", + "human | \n", + "10-20% | \n", + "synonymous | \n", + "1.000 | \n", + "0.085986 | \n", + "0.755929 | \n", + "0.080149 | \n", + "
4 | \n", + "human | \n", + "20-30% | \n", + "nonsynonymous | \n", + "0.375 | \n", + "0.019760 | \n", + "0.517549 | \n", + "0.034982 | \n", + "
\n", + " | species | \n", + "bin | \n", + "syn_nonsyn | \n", + "mean_count | \n", + "mean_proportion | \n", + "std_count | \n", + "std_proportion | \n", + "color | \n", + "
---|---|---|---|---|---|---|---|---|
0 | \n", + "human | \n", + "1-10% | \n", + "nonsynonymous | \n", + "12.250 | \n", + "0.873936 | \n", + "12.032694 | \n", + "0.105702 | \n", + "human_nonsynonymous | \n", + "
1 | \n", + "human | \n", + "1-10% | \n", + "synonymous | \n", + "9.875 | \n", + "0.869459 | \n", + "5.591767 | \n", + "0.127899 | \n", + "human_synonymous | \n", + "
2 | \n", + "human | \n", + "10-20% | \n", + "nonsynonymous | \n", + "1.125 | \n", + "0.093804 | \n", + "0.991031 | \n", + "0.081250 | \n", + "human_nonsynonymous | \n", + "
3 | \n", + "human | \n", + "10-20% | \n", + "synonymous | \n", + "1.000 | \n", + "0.085986 | \n", + "0.755929 | \n", + "0.080149 | \n", + "human_synonymous | \n", + "
4 | \n", + "human | \n", + "20-30% | \n", + "nonsynonymous | \n", + "0.375 | \n", + "0.019760 | \n", + "0.517549 | \n", + "0.034982 | \n", + "human_nonsynonymous | \n", + "
5 | \n", + "human | \n", + "20-30% | \n", + "synonymous | \n", + "0.375 | \n", + "0.028930 | \n", + "0.517549 | \n", + "0.045759 | \n", + "human_synonymous | \n", + "
6 | \n", + "human | \n", + "30-40% | \n", + "nonsynonymous | \n", + "0.000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "human_nonsynonymous | \n", + "
7 | \n", + "human | \n", + "30-40% | \n", + "synonymous | \n", + "0.125 | \n", + "0.015625 | \n", + "0.353553 | \n", + "0.044194 | \n", + "human_synonymous | \n", + "
8 | \n", + "human | \n", + "40-50% | \n", + "nonsynonymous | \n", + "0.125 | \n", + "0.012500 | \n", + "0.353553 | \n", + "0.035355 | \n", + "human_nonsynonymous | \n", + "
9 | \n", + "human | \n", + "40-50% | \n", + "synonymous | \n", + "0.000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "human_synonymous | \n", + "
0 | \n", + "duck | \n", + "1-10% | \n", + "nonsynonymous | \n", + "2.600 | \n", + "0.850000 | \n", + "1.140175 | \n", + "0.223607 | \n", + "duck_nonsynonymous | \n", + "
1 | \n", + "duck | \n", + "1-10% | \n", + "synonymous | \n", + "3.800 | \n", + "0.838095 | \n", + "1.483240 | \n", + "0.167006 | \n", + "duck_synonymous | \n", + "
2 | \n", + "duck | \n", + "10-20% | \n", + "nonsynonymous | \n", + "0.400 | \n", + "0.100000 | \n", + "0.547723 | \n", + "0.136931 | \n", + "duck_nonsynonymous | \n", + "
3 | \n", + "duck | \n", + "10-20% | \n", + "synonymous | \n", + "0.400 | \n", + "0.100000 | \n", + "0.547723 | \n", + "0.149071 | \n", + "duck_synonymous | \n", + "
4 | \n", + "duck | \n", + "20-30% | \n", + "nonsynonymous | \n", + "0.200 | \n", + "0.050000 | \n", + "0.447214 | \n", + "0.111803 | \n", + "duck_nonsynonymous | \n", + "
5 | \n", + "duck | \n", + "20-30% | \n", + "synonymous | \n", + "0.400 | \n", + "0.061905 | \n", + "0.547723 | \n", + "0.085184 | \n", + "duck_synonymous | \n", + "
6 | \n", + "duck | \n", + "30-40% | \n", + "nonsynonymous | \n", + "0.000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "duck_nonsynonymous | \n", + "
7 | \n", + "duck | \n", + "30-40% | \n", + "synonymous | \n", + "0.000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "duck_synonymous | \n", + "
8 | \n", + "duck | \n", + "40-50% | \n", + "nonsynonymous | \n", + "0.000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "duck_nonsynonymous | \n", + "
9 | \n", + "duck | \n", + "40-50% | \n", + "synonymous | \n", + "0.000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "duck_synonymous | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "species | \n", + "color | \n", + "bin | \n", + "nt_change | \n", + "aa_site | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
41 | \n", + "AA4KNL706F512_A_Cambodia_X0128304_2013_H5 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA | \n", + "149 | \n", + "C | \n", + "T | \n", + "Thr41Ile | \n", + "nonsynonymous | \n", + "5.19% | \n", + "0.0519 | \n", + "NaN | \n", + "human | \n", + "human_nonsynonymous | \n", + "1-10% | \n", + "HA149T | \n", + "HA41 | \n", + "
42 | \n", + "AA4KNL706F512_A_Cambodia_X0128304_2013_H5 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA | \n", + "163 | \n", + "C | \n", + "T | \n", + "Gln46Stop | \n", + "stop_gained | \n", + "20.24% | \n", + "0.2024 | \n", + "NaN | \n", + "human | \n", + "human_stop_gained | \n", + "20-30% | \n", + "HA163T | \n", + "HA46 | \n", + "
43 | \n", + "AA4KNL706F512_A_Cambodia_X0128304_2013_H5 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA | \n", + "299 | \n", + "A | \n", + "G | \n", + "Glu91Gly | \n", + "nonsynonymous | \n", + "6.33% | \n", + "0.0633 | \n", + "NaN | \n", + "human | \n", + "human_nonsynonymous | \n", + "1-10% | \n", + "HA299G | \n", + "HA91 | \n", + "
44 | \n", + "AA4KNL706F512_A_Cambodia_X0128304_2013_H5 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA | \n", + "450 | \n", + "T | \n", + "C | \n", + "His141His | \n", + "synonymous | \n", + "5.69% | \n", + "0.0569 | \n", + "NaN | \n", + "human | \n", + "human_synonymous | \n", + "1-10% | \n", + "HA450C | \n", + "HA141 | \n", + "
45 | \n", + "AA4KNL706F512_A_Cambodia_X0128304_2013_H5 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA | \n", + "542 | \n", + "A | \n", + "C | \n", + "Lys172Thr | \n", + "nonsynonymous | \n", + "11.5% | \n", + "0.1150 | \n", + "NaN | \n", + "human | \n", + "human_nonsynonymous | \n", + "10-20% | \n", + "HA542C | \n", + "HA172 | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
1 | \n", + "A_duck_Cambodia_381W11M4_2013_NP | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
2 | \n", + "A_duck_Cambodia_381W11M4_2013_PA | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "
3 | \n", + "A_duck_Cambodia_381W11M4_2013_PA | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
4 | \n", + "A_duck_Cambodia_381W11M4_2013_PA | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
1 | \n", + "A_duck_Cambodia_381W11M4_2013_NP | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
2 | \n", + "A_duck_Cambodia_381W11M4_2013_PA | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "
3 | \n", + "A_duck_Cambodia_381W11M4_2013_PA | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
4 | \n", + "A_duck_Cambodia_381W11M4_2013_PA | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "
\n", + " | sample | \n", + "gene | \n", + "synonymous_nonsynonymous | \n", + "number_of_SNPs | \n", + "
---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "nonsynonymous | \n", + "12 | \n", + "
1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "synonymous | \n", + "1 | \n", + "
2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "nonsynonymous | \n", + "1 | \n", + "
4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "nonsynonymous | \n", + "4 | \n", + "
5 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "synonymous | \n", + "2 | \n", + "
synonymous_nonsynonymous | \n", + "sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "
---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "12.0 | \n", + "1.0 | \n", + "
1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "
2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "4.0 | \n", + "2.0 | \n", + "
3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PA | \n", + "8.0 | \n", + "1.0 | \n", + "
4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB1 | \n", + "4.0 | \n", + "4.0 | \n", + "
synonymous_nonsynonymous | \n", + "sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "species | \n", + "
---|---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "12.0 | \n", + "1.0 | \n", + "human | \n", + "
1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "4.0 | \n", + "2.0 | \n", + "human | \n", + "
3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PA | \n", + "8.0 | \n", + "1.0 | \n", + "human | \n", + "
4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB1 | \n", + "4.0 | \n", + "4.0 | \n", + "human | \n", + "
synonymous_nonsynonymous | \n", + "sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "species | \n", + "
---|---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "12.0 | \n", + "1.0 | \n", + "human | \n", + "
1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "4.0 | \n", + "2.0 | \n", + "human | \n", + "
3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PA | \n", + "8.0 | \n", + "1.0 | \n", + "human | \n", + "
4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB1 | \n", + "4.0 | \n", + "4.0 | \n", + "human | \n", + "
5 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB2 | \n", + "2.0 | \n", + "4.0 | \n", + "human | \n", + "
6 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "neuraminidase | \n", + "5.0 | \n", + "5.0 | \n", + "human | \n", + "
7 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "HA | \n", + "4.0 | \n", + "2.0 | \n", + "human | \n", + "
8 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "M2 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
9 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "NP | \n", + "0.0 | \n", + "2.0 | \n", + "human | \n", + "
10 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "PA | \n", + "2.0 | \n", + "1.0 | \n", + "human | \n", + "
11 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "PB2 | \n", + "1.0 | \n", + "1.0 | \n", + "human | \n", + "
12 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "neuraminidase | \n", + "1.0 | \n", + "2.0 | \n", + "human | \n", + "
13 | \n", + "A_Cambodia_W0112303_2012 | \n", + "HA | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
14 | \n", + "A_Cambodia_W0112303_2012 | \n", + "NP | \n", + "2.0 | \n", + "1.0 | \n", + "human | \n", + "
15 | \n", + "A_Cambodia_W0112303_2012 | \n", + "PA | \n", + "2.0 | \n", + "4.0 | \n", + "human | \n", + "
16 | \n", + "A_Cambodia_W0112303_2012 | \n", + "PB1 | \n", + "0.0 | \n", + "2.0 | \n", + "human | \n", + "
17 | \n", + "A_Cambodia_W0112303_2012 | \n", + "PB2 | \n", + "3.0 | \n", + "0.0 | \n", + "human | \n", + "
18 | \n", + "A_Cambodia_X0125302_2013 | \n", + "HA | \n", + "2.0 | \n", + "0.0 | \n", + "human | \n", + "
19 | \n", + "A_Cambodia_X0125302_2013 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
20 | \n", + "A_Cambodia_X0125302_2013 | \n", + "M2 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
21 | \n", + "A_Cambodia_X0125302_2013 | \n", + "NS1 | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
22 | \n", + "A_Cambodia_X0125302_2013 | \n", + "PA | \n", + "0.0 | \n", + "2.0 | \n", + "human | \n", + "
23 | \n", + "A_Cambodia_X0125302_2013 | \n", + "PB1 | \n", + "3.0 | \n", + "5.0 | \n", + "human | \n", + "
24 | \n", + "A_Cambodia_X0125302_2013 | \n", + "PB2 | \n", + "3.0 | \n", + "0.0 | \n", + "human | \n", + "
25 | \n", + "A_Cambodia_X0125302_2013 | \n", + "neuraminidase | \n", + "0.0 | \n", + "2.0 | \n", + "human | \n", + "
26 | \n", + "A_Cambodia_X0128304_2013 | \n", + "HA | \n", + "8.0 | \n", + "3.0 | \n", + "human | \n", + "
27 | \n", + "A_Cambodia_X0128304_2013 | \n", + "M1 | \n", + "5.0 | \n", + "2.0 | \n", + "human | \n", + "
28 | \n", + "A_Cambodia_X0128304_2013 | \n", + "M2 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
29 | \n", + "A_Cambodia_X0128304_2013 | \n", + "NEP | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
30 | \n", + "A_Cambodia_X0128304_2013 | \n", + "NP | \n", + "3.0 | \n", + "5.0 | \n", + "human | \n", + "
31 | \n", + "A_Cambodia_X0128304_2013 | \n", + "NS1 | \n", + "1.0 | \n", + "3.0 | \n", + "human | \n", + "
32 | \n", + "A_Cambodia_X0128304_2013 | \n", + "PA | \n", + "5.0 | \n", + "2.0 | \n", + "human | \n", + "
33 | \n", + "A_Cambodia_X0128304_2013 | \n", + "PB2 | \n", + "7.0 | \n", + "4.0 | \n", + "human | \n", + "
34 | \n", + "A_Cambodia_X0128304_2013 | \n", + "neuraminidase | \n", + "2.0 | \n", + "2.0 | \n", + "human | \n", + "
35 | \n", + "A_Cambodia_X0207301_2013 | \n", + "HA | \n", + "1.0 | \n", + "2.0 | \n", + "human | \n", + "
36 | \n", + "A_Cambodia_X0207301_2013 | \n", + "M1 | \n", + "0.0 | \n", + "3.0 | \n", + "human | \n", + "
37 | \n", + "A_Cambodia_X0207301_2013 | \n", + "NEP | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "
38 | \n", + "A_Cambodia_X0207301_2013 | \n", + "NP | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
39 | \n", + "A_Cambodia_X0207301_2013 | \n", + "NS1 | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
40 | \n", + "A_Cambodia_X0207301_2013 | \n", + "PA | \n", + "2.0 | \n", + "6.0 | \n", + "human | \n", + "
41 | \n", + "A_Cambodia_X0207301_2013 | \n", + "PB1 | \n", + "1.0 | \n", + "3.0 | \n", + "human | \n", + "
42 | \n", + "A_Cambodia_X0207301_2013 | \n", + "neuraminidase | \n", + "1.0 | \n", + "1.0 | \n", + "human | \n", + "
43 | \n", + "A_Cambodia_X0219301_2013 | \n", + "NP | \n", + "1.0 | \n", + "1.0 | \n", + "human | \n", + "
44 | \n", + "A_Cambodia_X0219301_2013 | \n", + "PA | \n", + "2.0 | \n", + "2.0 | \n", + "human | \n", + "
45 | \n", + "A_Cambodia_X0219301_2013 | \n", + "PB2 | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
46 | \n", + "A_Cambodia_X1030304_2013 | \n", + "HA | \n", + "1.0 | \n", + "1.0 | \n", + "human | \n", + "
47 | \n", + "A_Cambodia_X1030304_2013 | \n", + "M1 | \n", + "1.0 | \n", + "2.0 | \n", + "human | \n", + "
48 | \n", + "A_Cambodia_X1030304_2013 | \n", + "M2 | \n", + "2.0 | \n", + "0.0 | \n", + "human | \n", + "
49 | \n", + "A_Cambodia_X1030304_2013 | \n", + "NS1 | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
50 | \n", + "A_Cambodia_X1030304_2013 | \n", + "PA | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
51 | \n", + "A_Cambodia_X1030304_2013 | \n", + "PB1 | \n", + "3.0 | \n", + "0.0 | \n", + "human | \n", + "
52 | \n", + "A_Cambodia_X1030304_2013 | \n", + "PB2 | \n", + "0.0 | \n", + "1.0 | \n", + "human | \n", + "
53 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "HA | \n", + "1.0 | \n", + "0.0 | \n", + "duck | \n", + "
54 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "duck | \n", + "
55 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "NP | \n", + "1.0 | \n", + "1.0 | \n", + "duck | \n", + "
56 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "PB1 | \n", + "0.0 | \n", + "1.0 | \n", + "duck | \n", + "
57 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "neuraminidase | \n", + "1.0 | \n", + "1.0 | \n", + "duck | \n", + "
58 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "HA | \n", + "1.0 | \n", + "0.0 | \n", + "duck | \n", + "
59 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "NP | \n", + "1.0 | \n", + "0.0 | \n", + "duck | \n", + "
60 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "1.0 | \n", + "2.0 | \n", + "duck | \n", + "
61 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PB1 | \n", + "1.0 | \n", + "0.0 | \n", + "duck | \n", + "
62 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PB2 | \n", + "0.0 | \n", + "4.0 | \n", + "duck | \n", + "
63 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "duck | \n", + "
64 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "PA | \n", + "0.0 | \n", + "1.0 | \n", + "duck | \n", + "
65 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "PB1 | \n", + "0.0 | \n", + "2.0 | \n", + "duck | \n", + "
66 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "HA | \n", + "0.0 | \n", + "1.0 | \n", + "duck | \n", + "
67 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "NEP | \n", + "1.0 | \n", + "1.0 | \n", + "duck | \n", + "
68 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "NS1 | \n", + "2.0 | \n", + "0.0 | \n", + "duck | \n", + "
69 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "PA | \n", + "0.0 | \n", + "1.0 | \n", + "duck | \n", + "
70 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "neuraminidase | \n", + "0.0 | \n", + "1.0 | \n", + "duck | \n", + "
71 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "HA | \n", + "1.0 | \n", + "1.0 | \n", + "duck | \n", + "
72 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "NP | \n", + "3.0 | \n", + "5.0 | \n", + "duck | \n", + "
73 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "PB2 | \n", + "0.0 | \n", + "1.0 | \n", + "duck | \n", + "
\n", + " | sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "species | \n", + "Nsites | \n", + "Ssites | \n", + "N_per_site | \n", + "S_per_site | \n", + "
---|---|---|---|---|---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
0 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "PB1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
0 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "M1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
\n", + " | Nsites | \n", + "Ssites | \n", + "sample | \n", + "gene | \n", + "
---|---|---|---|---|
0 | \n", + "1332.74039747032 | \n", + "370.650906877508 | \n", + "A_Cambodia_X0128304_2013 | \n", + "HA | \n", + "
0 | \n", + "578.515593779322 | \n", + "177.484406220678 | \n", + "A_Cambodia_X0128304_2013 | \n", + "M1 | \n", + "
0 | \n", + "227 | \n", + "64 | \n", + "A_Cambodia_X0128304_2013 | \n", + "M2 | \n", + "
0 | \n", + "1050.11942257218 | \n", + "296.880577427822 | \n", + "A_Cambodia_X0128304_2013 | \n", + "neuraminidase | \n", + "
0 | \n", + "286.009963768116 | \n", + "76.990036231884 | \n", + "A_Cambodia_X0128304_2013 | \n", + "NEP | \n", + "
\n", + " | sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "species | \n", + "Nsites | \n", + "Ssites | \n", + "
---|---|---|---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "12.0 | \n", + "1.0 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "
1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "
2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "4.0 | \n", + "2.0 | \n", + "human | \n", + "1148.01647108678 | \n", + "345.983528913223 | \n", + "
3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PA | \n", + "8.0 | \n", + "1.0 | \n", + "human | \n", + "1684.40017392789 | \n", + "463.421018125091 | \n", + "
4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB1 | \n", + "4.0 | \n", + "4.0 | \n", + "human | \n", + "1767.9268235821 | \n", + "503.073176417901 | \n", + "
\n", + " | sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "species | \n", + "Nsites | \n", + "Ssites | \n", + "N_per_site | \n", + "S_per_site | \n", + "
---|---|---|---|---|---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "12.0 | \n", + "1.0 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "0.009003 | \n", + "0.002695 | \n", + "
1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "1.0 | \n", + "0.0 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "0.000750 | \n", + "0.000000 | \n", + "
2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "4.0 | \n", + "2.0 | \n", + "human | \n", + "1148.01647108678 | \n", + "345.983528913223 | \n", + "0.003484 | \n", + "0.005781 | \n", + "
3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PA | \n", + "8.0 | \n", + "1.0 | \n", + "human | \n", + "1684.40017392789 | \n", + "463.421018125091 | \n", + "0.004749 | \n", + "0.002158 | \n", + "
4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB1 | \n", + "4.0 | \n", + "4.0 | \n", + "human | \n", + "1767.9268235821 | \n", + "503.073176417901 | \n", + "0.002263 | \n", + "0.007951 | \n", + "
\n", + " | index | \n", + "sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "species | \n", + "Nsites | \n", + "Ssites | \n", + "N_per_site | \n", + "S_per_site | \n", + "
---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "12 | \n", + "1 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "0.00900256 | \n", + "0.00269508 | \n", + "
1 | \n", + "1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "1 | \n", + "0 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "0.000750214 | \n", + "0 | \n", + "
2 | \n", + "2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "4 | \n", + "2 | \n", + "human | \n", + "1148.01647108678 | \n", + "345.983528913223 | \n", + "0.00348427 | \n", + "0.00578062 | \n", + "
3 | \n", + "3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PA | \n", + "8 | \n", + "1 | \n", + "human | \n", + "1684.40017392789 | \n", + "463.421018125091 | \n", + "0.00474947 | \n", + "0.00215787 | \n", + "
4 | \n", + "4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB1 | \n", + "4 | \n", + "4 | \n", + "human | \n", + "1767.9268235821 | \n", + "503.073176417901 | \n", + "0.00226254 | \n", + "0.00795113 | \n", + "
5 | \n", + "5 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB2 | \n", + "2 | \n", + "4 | \n", + "human | \n", + "1759.40919088767 | \n", + "517.528122545167 | \n", + "0.00113675 | \n", + "0.00772905 | \n", + "
6 | \n", + "6 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "neuraminidase | \n", + "5 | \n", + "5 | \n", + "human | \n", + "1049.14877034739 | \n", + "297.851229652607 | \n", + "0.00476577 | \n", + "0.0167869 | \n", + "
7 | \n", + "7 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "HA | \n", + "4 | \n", + "2 | \n", + "human | \n", + "1332.78501496308 | \n", + "371.21498503692 | \n", + "0.00300123 | \n", + "0.00538771 | \n", + "
8 | \n", + "8 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "M2 | \n", + "1 | \n", + "0 | \n", + "human | \n", + "227.806260575296 | \n", + "63.1937394247039 | \n", + "0.00438969 | \n", + "0 | \n", + "
9 | \n", + "9 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "NP | \n", + "0 | \n", + "2 | \n", + "human | \n", + "1147.62311557789 | \n", + "346.37688442211 | \n", + "0 | \n", + "0.00577406 | \n", + "
10 | \n", + "10 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "PA | \n", + "2 | \n", + "1 | \n", + "human | \n", + "1683.83333333334 | \n", + "464.166666666666 | \n", + "0.00118777 | \n", + "0.0021544 | \n", + "
11 | \n", + "11 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "PB2 | \n", + "1 | \n", + "1 | \n", + "human | \n", + "1757.69589041096 | \n", + "519.304109589039 | \n", + "0.000568927 | \n", + "0.00192565 | \n", + "
12 | \n", + "12 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "neuraminidase | \n", + "1 | \n", + "2 | \n", + "human | \n", + "1049.51340033501 | \n", + "297.486599664992 | \n", + "0.000952823 | \n", + "0.00672299 | \n", + "
13 | \n", + "13 | \n", + "A_Cambodia_W0112303_2012 | \n", + "HA | \n", + "0 | \n", + "1 | \n", + "human | \n", + "1333.66666666667 | \n", + "370.333333333333 | \n", + "0 | \n", + "0.00270027 | \n", + "
14 | \n", + "14 | \n", + "A_Cambodia_W0112303_2012 | \n", + "NP | \n", + "2 | \n", + "1 | \n", + "human | \n", + "1148.13882383287 | \n", + "345.861176167126 | \n", + "0.00174195 | \n", + "0.00289133 | \n", + "
15 | \n", + "15 | \n", + "A_Cambodia_W0112303_2012 | \n", + "PA | \n", + "2 | \n", + "4 | \n", + "human | \n", + "1683.69121077319 | \n", + "464.308789226808 | \n", + "0.00118787 | \n", + "0.00861496 | \n", + "
16 | \n", + "16 | \n", + "A_Cambodia_W0112303_2012 | \n", + "PB1 | \n", + "0 | \n", + "2 | \n", + "human | \n", + "1768.06094307243 | \n", + "502.939056927572 | \n", + "0 | \n", + "0.00397662 | \n", + "
17 | \n", + "17 | \n", + "A_Cambodia_W0112303_2012 | \n", + "PB2 | \n", + "3 | \n", + "0 | \n", + "human | \n", + "1757.4705882353 | \n", + "519.529411764704 | \n", + "0.001707 | \n", + "0 | \n", + "
18 | \n", + "18 | \n", + "A_Cambodia_X0125302_2013 | \n", + "HA | \n", + "2 | \n", + "0 | \n", + "human | \n", + "1332.17396091385 | \n", + "371.826039086154 | \n", + "0.00150131 | \n", + "0 | \n", + "
19 | \n", + "19 | \n", + "A_Cambodia_X0125302_2013 | \n", + "M1 | \n", + "1 | \n", + "0 | \n", + "human | \n", + "578.666666666666 | \n", + "177.333333333333 | \n", + "0.00172811 | \n", + "0 | \n", + "
20 | \n", + "20 | \n", + "A_Cambodia_X0125302_2013 | \n", + "M2 | \n", + "1 | \n", + "0 | \n", + "human | \n", + "227.018087855297 | \n", + "63.9819121447029 | \n", + "0.00440494 | \n", + "0 | \n", + "
21 | \n", + "21 | \n", + "A_Cambodia_X0125302_2013 | \n", + "NS1 | \n", + "0 | \n", + "1 | \n", + "human | \n", + "521.166666666667 | \n", + "153.833333333333 | \n", + "0 | \n", + "0.00650054 | \n", + "
22 | \n", + "22 | \n", + "A_Cambodia_X0125302_2013 | \n", + "PA | \n", + "0 | \n", + "2 | \n", + "human | \n", + "1682 | \n", + "465.999999999999 | \n", + "0 | \n", + "0.00429185 | \n", + "
23 | \n", + "23 | \n", + "A_Cambodia_X0125302_2013 | \n", + "PB1 | \n", + "3 | \n", + "5 | \n", + "human | \n", + "1766.50153834872 | \n", + "504.498461651281 | \n", + "0.00169827 | \n", + "0.00991083 | \n", + "
24 | \n", + "24 | \n", + "A_Cambodia_X0125302_2013 | \n", + "PB2 | \n", + "3 | \n", + "0 | \n", + "human | \n", + "1751.55580621173 | \n", + "525.444193788278 | \n", + "0.00171276 | \n", + "0 | \n", + "
25 | \n", + "25 | \n", + "A_Cambodia_X0125302_2013 | \n", + "neuraminidase | \n", + "0 | \n", + "2 | \n", + "human | \n", + "1049.5 | \n", + "297.5 | \n", + "0 | \n", + "0.00672269 | \n", + "
26 | \n", + "26 | \n", + "A_Cambodia_X0128304_2013 | \n", + "HA | \n", + "8 | \n", + "3 | \n", + "human | \n", + "1332.74039747032 | \n", + "370.650906877508 | \n", + "0.00600267 | \n", + "0.00809387 | \n", + "
27 | \n", + "27 | \n", + "A_Cambodia_X0128304_2013 | \n", + "M1 | \n", + "5 | \n", + "2 | \n", + "human | \n", + "578.515593779322 | \n", + "177.484406220678 | \n", + "0.00864281 | \n", + "0.0112686 | \n", + "
28 | \n", + "28 | \n", + "A_Cambodia_X0128304_2013 | \n", + "M2 | \n", + "1 | \n", + "0 | \n", + "human | \n", + "227 | \n", + "64 | \n", + "0.00440529 | \n", + "0 | \n", + "
29 | \n", + "29 | \n", + "A_Cambodia_X0128304_2013 | \n", + "NEP | \n", + "1 | \n", + "0 | \n", + "human | \n", + "286.009963768116 | \n", + "76.990036231884 | \n", + "0.00349638 | \n", + "0 | \n", + "
30 | \n", + "30 | \n", + "A_Cambodia_X0128304_2013 | \n", + "NP | \n", + "3 | \n", + "5 | \n", + "human | \n", + "1145.6420481738 | \n", + "348.357951826201 | \n", + "0.00261862 | \n", + "0.0143531 | \n", + "
31 | \n", + "31 | \n", + "A_Cambodia_X0128304_2013 | \n", + "NS1 | \n", + "1 | \n", + "3 | \n", + "human | \n", + "520.5 | \n", + "154.5 | \n", + "0.00192123 | \n", + "0.0194175 | \n", + "
32 | \n", + "32 | \n", + "A_Cambodia_X0128304_2013 | \n", + "PA | \n", + "5 | \n", + "2 | \n", + "human | \n", + "1682 | \n", + "465.999999999999 | \n", + "0.00297265 | \n", + "0.00429185 | \n", + "
33 | \n", + "33 | \n", + "A_Cambodia_X0128304_2013 | \n", + "PB2 | \n", + "7 | \n", + "4 | \n", + "human | \n", + "1751.86491175721 | \n", + "525.135088242794 | \n", + "0.00399574 | \n", + "0.00761709 | \n", + "
34 | \n", + "34 | \n", + "A_Cambodia_X0128304_2013 | \n", + "neuraminidase | \n", + "2 | \n", + "2 | \n", + "human | \n", + "1050.11942257218 | \n", + "296.880577427822 | \n", + "0.00190455 | \n", + "0.00673672 | \n", + "
35 | \n", + "35 | \n", + "A_Cambodia_X0207301_2013 | \n", + "HA | \n", + "1 | \n", + "2 | \n", + "human | \n", + "1333.21212121212 | \n", + "370.787878787878 | \n", + "0.000750068 | \n", + "0.00539392 | \n", + "
36 | \n", + "36 | \n", + "A_Cambodia_X0207301_2013 | \n", + "M1 | \n", + "0 | \n", + "3 | \n", + "human | \n", + "578.666666666666 | \n", + "177.333333333333 | \n", + "0 | \n", + "0.0169173 | \n", + "
37 | \n", + "37 | \n", + "A_Cambodia_X0207301_2013 | \n", + "NEP | \n", + "1 | \n", + "0 | \n", + "human | \n", + "285.969782813975 | \n", + "77.0302171860245 | \n", + "0.00349687 | \n", + "0 | \n", + "
38 | \n", + "38 | \n", + "A_Cambodia_X0207301_2013 | \n", + "NP | \n", + "0 | \n", + "1 | \n", + "human | \n", + "1145.6600177305 | \n", + "348.339982269503 | \n", + "0 | \n", + "0.00287076 | \n", + "
39 | \n", + "39 | \n", + "A_Cambodia_X0207301_2013 | \n", + "NS1 | \n", + "0 | \n", + "1 | \n", + "human | \n", + "520.507554296507 | \n", + "154.492445703494 | \n", + "0 | \n", + "0.00647281 | \n", + "
40 | \n", + "40 | \n", + "A_Cambodia_X0207301_2013 | \n", + "PA | \n", + "2 | \n", + "6 | \n", + "human | \n", + "1681.97389375589 | \n", + "466.026106244114 | \n", + "0.00118908 | \n", + "0.0128748 | \n", + "
41 | \n", + "41 | \n", + "A_Cambodia_X0207301_2013 | \n", + "PB1 | \n", + "1 | \n", + "3 | \n", + "human | \n", + "1766.50000000001 | \n", + "504.499999999998 | \n", + "0.000566091 | \n", + "0.00594648 | \n", + "
42 | \n", + "42 | \n", + "A_Cambodia_X0207301_2013 | \n", + "neuraminidase | \n", + "1 | \n", + "1 | \n", + "human | \n", + "1047.5 | \n", + "296.5 | \n", + "0.000954654 | \n", + "0.00337268 | \n", + "
43 | \n", + "43 | \n", + "A_Cambodia_X0219301_2013 | \n", + "NP | \n", + "1 | \n", + "1 | \n", + "human | \n", + "1145.66666666667 | \n", + "348.333333333333 | \n", + "0.000872854 | \n", + "0.00287081 | \n", + "
44 | \n", + "44 | \n", + "A_Cambodia_X0219301_2013 | \n", + "PA | \n", + "2 | \n", + "2 | \n", + "human | \n", + "1682.98511904762 | \n", + "465.01488095238 | \n", + "0.00118836 | \n", + "0.00430094 | \n", + "
45 | \n", + "45 | \n", + "A_Cambodia_X0219301_2013 | \n", + "PB2 | \n", + "0 | \n", + "1 | \n", + "human | \n", + "1751.00000000001 | \n", + "525.999999999998 | \n", + "0 | \n", + "0.00190114 | \n", + "
46 | \n", + "46 | \n", + "A_Cambodia_X1030304_2013 | \n", + "HA | \n", + "1 | \n", + "1 | \n", + "human | \n", + "1332.12529832936 | \n", + "371.874701670644 | \n", + "0.00075068 | \n", + "0.00268908 | \n", + "
47 | \n", + "47 | \n", + "A_Cambodia_X1030304_2013 | \n", + "M1 | \n", + "1 | \n", + "2 | \n", + "human | \n", + "578.648484848485 | \n", + "177.351515151515 | \n", + "0.00172816 | \n", + "0.011277 | \n", + "
48 | \n", + "48 | \n", + "A_Cambodia_X1030304_2013 | \n", + "M2 | \n", + "2 | \n", + "0 | \n", + "human | \n", + "226.990616621984 | \n", + "64.0093833780161 | \n", + "0.00881094 | \n", + "0 | \n", + "
49 | \n", + "49 | \n", + "A_Cambodia_X1030304_2013 | \n", + "NS1 | \n", + "0 | \n", + "1 | \n", + "human | \n", + "520.5 | \n", + "154.5 | \n", + "0 | \n", + "0.00647249 | \n", + "
50 | \n", + "50 | \n", + "A_Cambodia_X1030304_2013 | \n", + "PA | \n", + "0 | \n", + "1 | \n", + "human | \n", + "1682.16666666667 | \n", + "465.833333333332 | \n", + "0 | \n", + "0.00214669 | \n", + "
51 | \n", + "51 | \n", + "A_Cambodia_X1030304_2013 | \n", + "PB1 | \n", + "3 | \n", + "0 | \n", + "human | \n", + "1766.33993226257 | \n", + "504.660067737432 | \n", + "0.00169843 | \n", + "0 | \n", + "
52 | \n", + "52 | \n", + "A_Cambodia_X1030304_2013 | \n", + "PB2 | \n", + "0 | \n", + "1 | \n", + "human | \n", + "1751.19242020513 | \n", + "525.807579794871 | \n", + "0 | \n", + "0.00190184 | \n", + "
53 | \n", + "53 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "HA | \n", + "1 | \n", + "0 | \n", + "duck | \n", + "1332.33333333333 | \n", + "371.666666666666 | \n", + "0.000750563 | \n", + "0 | \n", + "
54 | \n", + "54 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "M1 | \n", + "1 | \n", + "0 | \n", + "duck | \n", + "577.112612612612 | \n", + "178.806306306306 | \n", + "0.00173276 | \n", + "0 | \n", + "
55 | \n", + "55 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "NP | \n", + "1 | \n", + "1 | \n", + "duck | \n", + "1148 | \n", + "345.999999999999 | \n", + "0.00087108 | \n", + "0.00289017 | \n", + "
56 | \n", + "56 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "PB1 | \n", + "0 | \n", + "1 | \n", + "duck | \n", + "1766.16666666667 | \n", + "504.833333333332 | \n", + "0 | \n", + "0.00198085 | \n", + "
57 | \n", + "57 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "neuraminidase | \n", + "1 | \n", + "1 | \n", + "duck | \n", + "1049.5 | \n", + "297.5 | \n", + "0.000952835 | \n", + "0.00336134 | \n", + "
58 | \n", + "58 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "HA | \n", + "1 | \n", + "0 | \n", + "duck | \n", + "1330.33333333333 | \n", + "370.666666666666 | \n", + "0.000751691 | \n", + "0 | \n", + "
59 | \n", + "59 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "NP | \n", + "1 | \n", + "0 | \n", + "duck | \n", + "1146.46241134752 | \n", + "347.537588652482 | \n", + "0.000872248 | \n", + "0 | \n", + "
60 | \n", + "60 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PA | \n", + "1 | \n", + "2 | \n", + "duck | \n", + "1681.73001508296 | \n", + "466.269984917043 | \n", + "0.000594626 | \n", + "0.00428936 | \n", + "
61 | \n", + "61 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PB1 | \n", + "1 | \n", + "0 | \n", + "duck | \n", + "1766.1245210728 | \n", + "504.875478927201 | \n", + "0.000566211 | \n", + "0 | \n", + "
62 | \n", + "62 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "PB2 | \n", + "0 | \n", + "4 | \n", + "duck | \n", + "1751.33333333334 | \n", + "525.666666666665 | \n", + "0 | \n", + "0.00760938 | \n", + "
63 | \n", + "63 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "M1 | \n", + "1 | \n", + "0 | \n", + "duck | \n", + "577.166666666667 | \n", + "178.833333333333 | \n", + "0.0017326 | \n", + "0 | \n", + "
64 | \n", + "64 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "PA | \n", + "0 | \n", + "1 | \n", + "duck | \n", + "1683.5 | \n", + "464.499999999999 | \n", + "0 | \n", + "0.00215285 | \n", + "
65 | \n", + "65 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "PB1 | \n", + "0 | \n", + "2 | \n", + "duck | \n", + "1766.99449944995 | \n", + "504.005500550053 | \n", + "0 | \n", + "0.00396821 | \n", + "
66 | \n", + "66 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "HA | \n", + "0 | \n", + "1 | \n", + "duck | \n", + "1334 | \n", + "369.999999999999 | \n", + "0 | \n", + "0.0027027 | \n", + "
67 | \n", + "67 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "NEP | \n", + "1 | \n", + "1 | \n", + "duck | \n", + "285.985185185185 | \n", + "77.0148148148148 | \n", + "0.00349668 | \n", + "0.0129845 | \n", + "
68 | \n", + "68 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "NS1 | \n", + "2 | \n", + "0 | \n", + "duck | \n", + "520.5 | \n", + "154.5 | \n", + "0.00384246 | \n", + "0 | \n", + "
69 | \n", + "69 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "PA | \n", + "0 | \n", + "1 | \n", + "duck | \n", + "1682 | \n", + "465.999999999999 | \n", + "0 | \n", + "0.00214592 | \n", + "
70 | \n", + "70 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "neuraminidase | \n", + "0 | \n", + "1 | \n", + "duck | \n", + "1049.66666666666 | \n", + "297.333333333334 | \n", + "0 | \n", + "0.00336323 | \n", + "
71 | \n", + "71 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "HA | \n", + "1 | \n", + "1 | \n", + "duck | \n", + "1328.85441370224 | \n", + "372.145586297759 | \n", + "0.000752528 | \n", + "0.00268712 | \n", + "
72 | \n", + "72 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "NP | \n", + "3 | \n", + "5 | \n", + "duck | \n", + "1145.70741842189 | \n", + "348.292581578106 | \n", + "0.00261847 | \n", + "0.0143557 | \n", + "
73 | \n", + "73 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "PB2 | \n", + "0 | \n", + "1 | \n", + "duck | \n", + "1751.83333333334 | \n", + "525.166666666665 | \n", + "0 | \n", + "0.00190416 | \n", + "
74 | \n", + "0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
75 | \n", + "0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
76 | \n", + "0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
77 | \n", + "0 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "PB1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
78 | \n", + "0 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "M1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
79 | \n", + "0 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
80 | \n", + "0 | \n", + "A_CAMBODIA_V0417301_2011 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
81 | \n", + "0 | \n", + "A_Cambodia_W0112303_2012 | \n", + "neuraminidase | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
82 | \n", + "0 | \n", + "A_Cambodia_W0112303_2012 | \n", + "M1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
83 | \n", + "0 | \n", + "A_Cambodia_W0112303_2012 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
84 | \n", + "0 | \n", + "A_Cambodia_W0112303_2012 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
85 | \n", + "0 | \n", + "A_Cambodia_W0112303_2012 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
86 | \n", + "0 | \n", + "A_Cambodia_X0125302_2013 | \n", + "NP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
87 | \n", + "0 | \n", + "A_Cambodia_X0125302_2013 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
88 | \n", + "0 | \n", + "A_Cambodia_X0207301_2013 | \n", + "PB2 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
89 | \n", + "0 | \n", + "A_Cambodia_X0207301_2013 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
90 | \n", + "0 | \n", + "A_Cambodia_X0219301_2013 | \n", + "PB1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
91 | \n", + "0 | \n", + "A_Cambodia_X0219301_2013 | \n", + "HA | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
92 | \n", + "0 | \n", + "A_Cambodia_X0219301_2013 | \n", + "neuraminidase | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
93 | \n", + "0 | \n", + "A_Cambodia_X0219301_2013 | \n", + "M1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
94 | \n", + "0 | \n", + "A_Cambodia_X0219301_2013 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
95 | \n", + "0 | \n", + "A_Cambodia_X0219301_2013 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
96 | \n", + "0 | \n", + "A_Cambodia_X0219301_2013 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
97 | \n", + "0 | \n", + "A_Cambodia_X1030304_2013 | \n", + "NP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
98 | \n", + "0 | \n", + "A_Cambodia_X1030304_2013 | \n", + "neuraminidase | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
99 | \n", + "0 | \n", + "A_Cambodia_X1030304_2013 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "human | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
100 | \n", + "0 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "PB2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
101 | \n", + "0 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "PA | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
102 | \n", + "0 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
103 | \n", + "0 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
104 | \n", + "0 | \n", + "A_duck_Cambodia_083D1_2011 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
105 | \n", + "0 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "neuraminidase | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
106 | \n", + "0 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "M1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
107 | \n", + "0 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
108 | \n", + "0 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
109 | \n", + "0 | \n", + "A_duck_Cambodia_381W11M4_2013 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
110 | \n", + "0 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "PB2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
111 | \n", + "0 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "HA | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
112 | \n", + "0 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "NP | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
113 | \n", + "0 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "neuraminidase | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
114 | \n", + "0 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
115 | \n", + "0 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
116 | \n", + "0 | \n", + "A_duck_Cambodia_PV027D1_2010 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
117 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "PB2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
118 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "PB1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
119 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "NP | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
120 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "M1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
121 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224301_2014 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
122 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "PB1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
123 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "PA | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
124 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "neuraminidase | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
125 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "M1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
126 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "M2 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
127 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "NS1 | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
128 | \n", + "0 | \n", + "A_duck_Cambodia_Y0224304_2014 | \n", + "NEP | \n", + "0 | \n", + "0 | \n", + "duck | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "
\n", + " | gene | \n", + "species | \n", + "variable | \n", + "mean | \n", + "std | \n", + "
---|---|---|---|---|---|
0 | \n", + "HA | \n", + "duck | \n", + "N_per_site | \n", + "0.000451 | \n", + "0.000412 | \n", + "
1 | \n", + "HA | \n", + "duck | \n", + "S_per_site | \n", + "0.001078 | \n", + "0.001476 | \n", + "
2 | \n", + "HA | \n", + "human | \n", + "N_per_site | \n", + "0.002626 | \n", + "0.003258 | \n", + "
3 | \n", + "HA | \n", + "human | \n", + "S_per_site | \n", + "0.003370 | \n", + "0.002792 | \n", + "
4 | \n", + "M1 | \n", + "duck | \n", + "N_per_site | \n", + "0.000693 | \n", + "0.000949 | \n", + "
\n", + " | gene | \n", + "species | \n", + "variable | \n", + "mean | \n", + "std | \n", + "color | \n", + "
---|---|---|---|---|---|---|
0 | \n", + "HA | \n", + "duck | \n", + "N_per_site | \n", + "0.000451 | \n", + "0.000412 | \n", + "duck nonsynonymous | \n", + "
1 | \n", + "HA | \n", + "duck | \n", + "S_per_site | \n", + "0.001078 | \n", + "0.001476 | \n", + "duck synonymous | \n", + "
2 | \n", + "HA | \n", + "human | \n", + "N_per_site | \n", + "0.002626 | \n", + "0.003258 | \n", + "human nonsynonymous | \n", + "
3 | \n", + "HA | \n", + "human | \n", + "S_per_site | \n", + "0.003370 | \n", + "0.002792 | \n", + "human synonymous | \n", + "
4 | \n", + "M1 | \n", + "duck | \n", + "N_per_site | \n", + "0.000693 | \n", + "0.000949 | \n", + "duck nonsynonymous | \n", + "
\n", + " | gene | \n", + "species | \n", + "variable | \n", + "mean | \n", + "std | \n", + "color | \n", + "
---|---|---|---|---|---|---|
0 | \n", + "HA | \n", + "duck | \n", + "N_per_site | \n", + "0.000451 | \n", + "0.000412 | \n", + "duck nonsynonymous | \n", + "
1 | \n", + "HA | \n", + "duck | \n", + "S_per_site | \n", + "0.001078 | \n", + "0.001476 | \n", + "duck synonymous | \n", + "
2 | \n", + "HA | \n", + "human | \n", + "N_per_site | \n", + "0.002626 | \n", + "0.003258 | \n", + "human nonsynonymous | \n", + "
3 | \n", + "HA | \n", + "human | \n", + "S_per_site | \n", + "0.003370 | \n", + "0.002792 | \n", + "human synonymous | \n", + "
4 | \n", + "M1 | \n", + "duck | \n", + "N_per_site | \n", + "0.000693 | \n", + "0.000949 | \n", + "duck nonsynonymous | \n", + "
\n", + " | gene | \n", + "species | \n", + "variable | \n", + "mean | \n", + "std | \n", + "color | \n", + "
---|---|---|---|---|---|---|
0 | \n", + "full\\ngenome | \n", + "human | \n", + "N_per_site | \n", + "0.001391 | \n", + "0.002101 | \n", + "human nonsynonymous | \n", + "
1 | \n", + "full\\ngenome | \n", + "human | \n", + "S_per_site | \n", + "0.003416 | \n", + "0.004591 | \n", + "human synonymous | \n", + "
2 | \n", + "full\\ngenome | \n", + "duck | \n", + "N_per_site | \n", + "0.000391 | \n", + "0.000869 | \n", + "duck nonsynonymous | \n", + "
3 | \n", + "full\\ngenome | \n", + "duck | \n", + "S_per_site | \n", + "0.001328 | \n", + "0.002999 | \n", + "duck synonymous | \n", + "
\n", + " | gene | \n", + "species | \n", + "variable | \n", + "mean | \n", + "std | \n", + "color | \n", + "
---|---|---|---|---|---|---|
39 | \n", + "neuraminidase | \n", + "human | \n", + "S_per_site | \n", + "0.005043 | \n", + "0.005676 | \n", + "human synonymous | \n", + "
0 | \n", + "full\\ngenome | \n", + "human | \n", + "N_per_site | \n", + "0.001391 | \n", + "0.002101 | \n", + "human nonsynonymous | \n", + "
1 | \n", + "full\\ngenome | \n", + "human | \n", + "S_per_site | \n", + "0.003416 | \n", + "0.004591 | \n", + "human synonymous | \n", + "
2 | \n", + "full\\ngenome | \n", + "duck | \n", + "N_per_site | \n", + "0.000391 | \n", + "0.000869 | \n", + "duck nonsynonymous | \n", + "
3 | \n", + "full\\ngenome | \n", + "duck | \n", + "S_per_site | \n", + "0.001328 | \n", + "0.002999 | \n", + "duck synonymous | \n", + "
\n", + " | sample | \n", + "species | \n", + "gene | \n", + "N_per_site | \n", + "S_per_site | \n", + "
---|---|---|---|---|---|
0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "human | \n", + "HA | \n", + "0.009003 | \n", + "0.002695 | \n", + "
1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "human | \n", + "M1 | \n", + "0.000750 | \n", + "0.000000 | \n", + "
2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "human | \n", + "NP | \n", + "0.003484 | \n", + "0.005781 | \n", + "
3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "human | \n", + "PA | \n", + "0.004749 | \n", + "0.002158 | \n", + "
4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "human | \n", + "PB1 | \n", + "0.002263 | \n", + "0.007951 | \n", + "
\n", + " | PB2_NS | \n", + "PB2_S | \n", + "M2_NS | \n", + "M2_S | \n", + "PB1_NS | \n", + "PB1_S | \n", + "NEP_NS | \n", + "NEP_S | \n", + "HA_NS | \n", + "HA_S | \n", + "NP_NS | \n", + "NP_S | \n", + "NS1_NS | \n", + "NS1_S | \n", + "M1_NS | \n", + "M1_S | \n", + "PA_NS | \n", + "PA_S | \n", + "neuraminidase_NS | \n", + "neuraminidase_S | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0.001137 | \n", + "0.007729 | \n", + "0.004390 | \n", + "0.0 | \n", + "0.002263 | \n", + "0.007951 | \n", + "0.003496 | \n", + "0.0 | \n", + "0.009003 | \n", + "0.002695 | \n", + "0.003484 | \n", + "0.005781 | \n", + "0.000000 | \n", + "0.006501 | \n", + "0.000750 | \n", + "0.000000 | \n", + "0.004749 | \n", + "0.002158 | \n", + "0.004766 | \n", + "0.016787 | \n", + "
1 | \n", + "0.000569 | \n", + "0.001926 | \n", + "0.004405 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.003977 | \n", + "0.003497 | \n", + "0.0 | \n", + "0.003001 | \n", + "0.005388 | \n", + "0.000000 | \n", + "0.005774 | \n", + "0.001921 | \n", + "0.019417 | \n", + "0.001728 | \n", + "0.000000 | \n", + "0.001188 | \n", + "0.002154 | \n", + "0.000953 | \n", + "0.006723 | \n", + "
2 | \n", + "0.001707 | \n", + "0.000000 | \n", + "0.004405 | \n", + "0.0 | \n", + "0.001698 | \n", + "0.009911 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.002700 | \n", + "0.001742 | \n", + "0.002891 | \n", + "0.000000 | \n", + "0.006473 | \n", + "0.008643 | \n", + "0.011269 | \n", + "0.001188 | \n", + "0.008615 | \n", + "0.000000 | \n", + "0.006723 | \n", + "
3 | \n", + "0.001713 | \n", + "0.000000 | \n", + "0.008811 | \n", + "0.0 | \n", + "0.000566 | \n", + "0.005946 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.001501 | \n", + "0.000000 | \n", + "0.002619 | \n", + "0.014353 | \n", + "0.000000 | \n", + "0.006472 | \n", + "0.000000 | \n", + "0.016917 | \n", + "0.000000 | \n", + "0.004292 | \n", + "0.001905 | \n", + "0.006737 | \n", + "
4 | \n", + "0.003996 | \n", + "0.007617 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.001698 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.006003 | \n", + "0.008094 | \n", + "0.000000 | \n", + "0.002871 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.001728 | \n", + "0.011277 | \n", + "0.002973 | \n", + "0.004292 | \n", + "0.000955 | \n", + "0.003373 | \n", + "
5 | \n", + "0.000000 | \n", + "0.001901 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000750 | \n", + "0.005394 | \n", + "0.000873 | \n", + "0.002871 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.001189 | \n", + "0.012875 | \n", + "0.000000 | \n", + "0.000000 | \n", + "
6 | \n", + "0.000000 | \n", + "0.001902 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000751 | \n", + "0.002689 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.001188 | \n", + "0.004301 | \n", + "0.000000 | \n", + "0.000000 | \n", + "
7 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.0 | \n", + "NaN | \n", + "NaN | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.002147 | \n", + "0.000000 | \n", + "0.000000 | \n", + "
\n", + " | PB2_NS | \n", + "PB2_S | \n", + "M2_NS | \n", + "M2_S | \n", + "PB1_NS | \n", + "PB1_S | \n", + "NEP_NS | \n", + "NEP_S | \n", + "HA_NS | \n", + "HA_S | \n", + "NP_NS | \n", + "NP_S | \n", + "NS1_NS | \n", + "NS1_S | \n", + "M1_NS | \n", + "M1_S | \n", + "PA_NS | \n", + "PA_S | \n", + "neuraminidase_NS | \n", + "neuraminidase_S | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0.0 | \n", + "0.007609 | \n", + "0.0 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.001981 | \n", + "0.003497 | \n", + "0.012985 | \n", + "0.000751 | \n", + "0.000000 | \n", + "0.000871 | \n", + "0.002890 | \n", + "0.003842 | \n", + "0.0 | \n", + "0.001733 | \n", + "0.0 | \n", + "0.000595 | \n", + "0.004289 | \n", + "0.000953 | \n", + "0.003361 | \n", + "
1 | \n", + "0.0 | \n", + "0.001904 | \n", + "0.0 | \n", + "0.0 | \n", + "0.000566 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000752 | \n", + "0.000000 | \n", + "0.000872 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.001733 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.002153 | \n", + "0.000000 | \n", + "0.003363 | \n", + "
2 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.003968 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.002703 | \n", + "0.002618 | \n", + "0.014356 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.002146 | \n", + "0.000000 | \n", + "0.000000 | \n", + "
3 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000753 | \n", + "0.002687 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "
4 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.0 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "0.000000 | \n", + "
\n", + " | index | \n", + "sample | \n", + "gene | \n", + "nonsynonymous | \n", + "synonymous | \n", + "species | \n", + "Nsites | \n", + "Ssites | \n", + "N_per_site | \n", + "S_per_site | \n", + "N_over_S | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "HA | \n", + "12 | \n", + "1 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "0.009003 | \n", + "0.002695 | \n", + "3.340370 | \n", + "
1 | \n", + "1 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "M1 | \n", + "1 | \n", + "0 | \n", + "human | \n", + "1332.9534942423 | \n", + "371.046505757698 | \n", + "0.000750 | \n", + "0.000001 | \n", + "750.213720 | \n", + "
2 | \n", + "2 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "NP | \n", + "4 | \n", + "2 | \n", + "human | \n", + "1148.01647108678 | \n", + "345.983528913223 | \n", + "0.003484 | \n", + "0.005781 | \n", + "0.602750 | \n", + "
3 | \n", + "3 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PA | \n", + "8 | \n", + "1 | \n", + "human | \n", + "1684.40017392789 | \n", + "463.421018125091 | \n", + "0.004749 | \n", + "0.002158 | \n", + "2.201002 | \n", + "
4 | \n", + "4 | \n", + "A_CAMBODIA_V0401301_2011 | \n", + "PB1 | \n", + "4 | \n", + "4 | \n", + "human | \n", + "1767.9268235821 | \n", + "503.073176417901 | \n", + "0.002263 | \n", + "0.007951 | \n", + "0.284555 | \n", + "
\n", + " | gene | \n", + "species | \n", + "N_over_S | \n", + "
---|---|---|---|
0 | \n", + "HA | \n", + "human | \n", + "3.340370 | \n", + "
1 | \n", + "M1 | \n", + "human | \n", + "750.213720 | \n", + "
2 | \n", + "NP | \n", + "human | \n", + "0.602750 | \n", + "
3 | \n", + "PA | \n", + "human | \n", + "2.201002 | \n", + "
4 | \n", + "PB1 | \n", + "human | \n", + "0.284555 | \n", + "
\n", + " | gene | \n", + "species | \n", + "mean | \n", + "std | \n", + "
---|---|---|---|---|
0 | \n", + "HA | \n", + "duck | \n", + "300.706930 | \n", + "411.175847 | \n", + "
1 | \n", + "HA | \n", + "human | \n", + "282.144509 | \n", + "795.925644 | \n", + "
2 | \n", + "M1 | \n", + "duck | \n", + "693.673172 | \n", + "948.481805 | \n", + "
3 | \n", + "M1 | \n", + "human | \n", + "310.261401 | \n", + "630.089922 | \n", + "
4 | \n", + "M2 | \n", + "duck | \n", + "1.000000 | \n", + "0.000000 | \n", + "
5 | \n", + "M2 | \n", + "human | \n", + "2201.239787 | \n", + "3328.340001 | \n", + "
6 | \n", + "NEP | \n", + "duck | \n", + "0.853859 | \n", + "0.326781 | \n", + "
7 | \n", + "NEP | \n", + "human | \n", + "874.906831 | \n", + "1618.161024 | \n", + "
8 | \n", + "NP | \n", + "duck | \n", + "174.946438 | \n", + "389.803832 | \n", + "
9 | \n", + "NP | \n", + "human | \n", + "0.342557 | \n", + "0.327777 | \n", + "
10 | \n", + "NS1 | \n", + "duck | \n", + "769.291835 | \n", + "1717.952769 | \n", + "
11 | \n", + "NS1 | \n", + "human | \n", + "0.512426 | \n", + "0.522241 | \n", + "
12 | \n", + "PA | \n", + "duck | \n", + "0.427912 | \n", + "0.525280 | \n", + "
13 | \n", + "PA | \n", + "human | \n", + "0.493931 | \n", + "0.727250 | \n", + "
14 | \n", + "PB1 | \n", + "duck | \n", + "113.642450 | \n", + "252.994279 | \n", + "
15 | \n", + "PB1 | \n", + "human | \n", + "404.754639 | \n", + "1069.746813 | \n", + "
16 | \n", + "PB2 | \n", + "duck | \n", + "0.600131 | \n", + "0.547543 | \n", + "
17 | \n", + "PB2 | \n", + "human | \n", + "213.711497 | \n", + "603.379336 | \n", + "
18 | \n", + "neuraminidase | \n", + "duck | \n", + "0.656753 | \n", + "0.480555 | \n", + "
19 | \n", + "neuraminidase | \n", + "human | \n", + "119.221231 | \n", + "336.346617 | \n", + "
\n", + " | PA | \n", + "NEP | \n", + "HA | \n", + "NP | \n", + "neuraminidase | \n", + "M2 | \n", + "PB1 | \n", + "PB2 | \n", + "NS1 | \n", + "M1 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "2.201002 | \n", + "3496.381688 | \n", + "3.340370 | \n", + "0.602750 | \n", + "0.283898 | \n", + "4389.694987 | \n", + "0.284555 | \n", + "0.147074 | \n", + "0.000154 | \n", + "750.213720 | \n", + "
1 | \n", + "0.551321 | \n", + "3496.872957 | \n", + "0.557052 | \n", + "0.000173 | \n", + "0.283452 | \n", + "0.000064 | \n", + "0.000126 | \n", + "0.295446 | \n", + "0.098943 | \n", + "1728.110599 | \n", + "
2 | \n", + "0.137884 | \n", + "1.000000 | \n", + "0.000370 | \n", + "0.301236 | \n", + "951.636286 | \n", + "4405.286344 | \n", + "0.142796 | \n", + "1706.998695 | \n", + "0.000154 | \n", + "0.613586 | \n", + "
3 | \n", + "0.000233 | \n", + "1.000000 | \n", + "2251.958144 | \n", + "0.303851 | \n", + "0.000149 | \n", + "8810.936900 | \n", + "0.142796 | \n", + "1.499936 | \n", + "0.000154 | \n", + "0.000059 | \n", + "
4 | \n", + "0.415577 | \n", + "1.000000 | \n", + "0.556224 | \n", + "0.228054 | \n", + "0.282711 | \n", + "1.000000 | \n", + "2830.712202 | \n", + "0.449637 | \n", + "1.000000 | \n", + "0.153246 | \n", + "
5 | \n", + "0.092357 | \n", + "1.000000 | \n", + "0.185411 | \n", + "0.000348 | \n", + "0.283055 | \n", + "1.000000 | \n", + "1.000000 | \n", + "0.000525 | \n", + "1.000000 | \n", + "1.000000 | \n", + "
6 | \n", + "0.552607 | \n", + "1.000000 | \n", + "0.000185 | \n", + "0.304044 | \n", + "0.000297 | \n", + "1.000000 | \n", + "1.000000 | \n", + "0.300400 | \n", + "1.000000 | \n", + "1.000000 | \n", + "
7 | \n", + "0.000466 | \n", + "1.000000 | \n", + "0.558318 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "NaN | \n", + "0.000263 | \n", + "1.000000 | \n", + "1.000000 | \n", + "
\n", + " | PA | \n", + "neuraminidase | \n", + "HA | \n", + "NP | \n", + "M2 | \n", + "PB1 | \n", + "PB2 | \n", + "NEP | \n", + "NS1 | \n", + "M1 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0.138628 | \n", + "0.283468 | \n", + "750.562922 | \n", + "0.301394 | \n", + "1.0 | \n", + "0.000505 | \n", + "0.000131 | \n", + "0.269297 | \n", + "3842.459174 | \n", + "1732.764071 | \n", + "
1 | \n", + "0.000464 | \n", + "0.000297 | \n", + "751.691305 | \n", + "872.248397 | \n", + "1.0 | \n", + "566.211492 | \n", + "0.000525 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1732.601790 | \n", + "
2 | \n", + "0.000466 | \n", + "1.000000 | \n", + "0.000370 | \n", + "0.182399 | \n", + "1.0 | \n", + "0.000252 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "
3 | \n", + "1.000000 | \n", + "1.000000 | \n", + "0.280050 | \n", + "1.000000 | \n", + "1.0 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "
4 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.0 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "1.000000 | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "feature_name | \n", + "description | \n", + "host_specific | \n", + "species | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "NaN | \n", + "no | \n", + "duck | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "Influenza A_NP_RNA-binding-domain_1(187) | \n", + "-N/A- | \n", + "no | \n", + "duck | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "no | \n", + "duck | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "no | \n", + "duck | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "no | \n", + "duck | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "feature_name | \n", + "description | \n", + "host_specific | \n", + "species | \n", + "aa_site | \n", + "
---|
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "feature_name | \n", + "description | \n", + "host_specific | \n", + "species | \n", + "aa_site | \n", + "
---|
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "feature_name | \n", + "description | \n", + "host_specific | \n", + "species | \n", + "aa_site | \n", + "
---|
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "feature_name | \n", + "description | \n", + "host_specific | \n", + "type | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB2 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PB2 | \n", + "1350 | \n", + "C | \n", + "T | \n", + "Asp441Asp | \n", + "synonymous | \n", + "3.19% | \n", + "0.0319 | \n", + "Influenza A_PB2_cap-binding-site_320(164) | \n", + "This fragment is a domain co-crystalized with ... | \n", + "yes | \n", + "replication | \n", + "
1 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_N1 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "neuraminidase | \n", + "181 | \n", + "A | \n", + "G | \n", + "Lys58Glu | \n", + "nonsynonymous | \n", + "17.89% | \n", + "0.1789 | \n", + "Influenza A_N1_determinant-of-host-range-speci... | \n", + "The length of the NA stalk affects the host ra... | \n", + "yes | \n", + "virulence | \n", + "
2 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_NS | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "NS1 | \n", + "646 | \n", + "T | \n", + "C | \n", + "Leu207Pro | \n", + "nonsynonymous | \n", + "2.22% | \n", + "0.0222 | \n", + "Influenza A_NS1_flexible-tail_204(27) | \n", + "The flexible tail appears to be unstructured a... | \n", + "yes | \n", + "interaction with host machinery | \n", + "
3 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_NS | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "NS1 | \n", + "654 | \n", + "C | \n", + "T | \n", + "Pro210Ser | \n", + "nonsynonymous | \n", + "2.55% | \n", + "0.0255 | \n", + "Influenza A_NS1_flexible-tail_204(27) | \n", + "The flexible tail appears to be unstructured a... | \n", + "yes | \n", + "interaction with host machinery | \n", + "
4 | \n", + "AH7E5L724F516_A_duck_Cambodia_Y0224304_2014_NP | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "NP | \n", + "633 | \n", + "C | \n", + "T | \n", + "Ile201Ile | \n", + "synonymous | \n", + "9.23% | \n", + "0.0923 | \n", + "Influenza A_NP_nuclear-localization-signal2_19... | \n", + "This region is a nuclear targeting motif that ... | \n", + "yes | \n", + "interaction with host machinery | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "feature_name | \n", + "description | \n", + "host_specific | \n", + "species | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "NaN | \n", + "no | \n", + "duck | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "Influenza A_NP_RNA-binding-domain_1(187) | \n", + "-N/A- | \n", + "no | \n", + "duck | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "no | \n", + "duck | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "no | \n", + "duck | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "no | \n", + "duck | \n", + "
\n", + " | coding_region_change | \n", + "description | \n", + "feature_name | \n", + "frequency | \n", + "frequency(%) | \n", + "gene | \n", + "host_specific | \n", + "reference_allele | \n", + "reference_position | \n", + "sample | \n", + "sampleid | \n", + "species | \n", + "synonymous_nonsynonymous | \n", + "type | \n", + "variant_allele | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "Ala265Thr | \n", + "no known function | \n", + "no known function | \n", + "0.0328 | \n", + "3.28% | \n", + "HA | \n", + "no | \n", + "G | \n", + "793 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "A | \n", + "
1 | \n", + "Gln117Arg | \n", + "-N/A- | \n", + "Influenza A_NP_RNA-binding-domain_1(187) | \n", + "0.2043 | \n", + "20.43% | \n", + "NP | \n", + "no | \n", + "A | \n", + "384 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "G | \n", + "
2 | \n", + "Ala307Ala | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.0455 | \n", + "4.55% | \n", + "PA | \n", + "no | \n", + "A | \n", + "939 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "
3 | \n", + "Arg367Lys | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.1900 | \n", + "19% | \n", + "PA | \n", + "no | \n", + "G | \n", + "1118 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "A | \n", + "
4 | \n", + "Pro530Pro | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.0438 | \n", + "4.38% | \n", + "PA | \n", + "no | \n", + "G | \n", + "1608 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "A | \n", + "
\n", + " | coding_region_change | \n", + "description | \n", + "feature_name | \n", + "frequency | \n", + "frequency(%) | \n", + "gene | \n", + "host_specific | \n", + "reference_allele | \n", + "reference_position | \n", + "sample | \n", + "sampleid | \n", + "species | \n", + "synonymous_nonsynonymous | \n", + "type | \n", + "variant_allele | \n", + "species_ns | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "Ala265Thr | \n", + "no known function | \n", + "no known function | \n", + "0.0328 | \n", + "3.28% | \n", + "HA | \n", + "no | \n", + "G | \n", + "793 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "A | \n", + "duck nonsynonymous | \n", + "
1 | \n", + "Gln117Arg | \n", + "-N/A- | \n", + "Influenza A_NP_RNA-binding-domain_1(187) | \n", + "0.2043 | \n", + "20.43% | \n", + "NP | \n", + "no | \n", + "A | \n", + "384 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "G | \n", + "duck nonsynonymous | \n", + "
2 | \n", + "Ala307Ala | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.0455 | \n", + "4.55% | \n", + "PA | \n", + "no | \n", + "A | \n", + "939 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
3 | \n", + "Arg367Lys | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.1900 | \n", + "19% | \n", + "PA | \n", + "no | \n", + "G | \n", + "1118 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "A | \n", + "duck nonsynonymous | \n", + "
4 | \n", + "Pro530Pro | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.0438 | \n", + "4.38% | \n", + "PA | \n", + "no | \n", + "G | \n", + "1608 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "A | \n", + "duck synonymous | \n", + "
5 | \n", + "Met317Val | \n", + "no known function | \n", + "no known function | \n", + "0.0421 | \n", + "4.21% | \n", + "PB1 | \n", + "no | \n", + "A | \n", + "968 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB1 | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "G | \n", + "duck nonsynonymous | \n", + "
6 | \n", + "Gly222Gly | \n", + "no known function | \n", + "no known function | \n", + "0.0327 | \n", + "3.27% | \n", + "PB2 | \n", + "no | \n", + "C | \n", + "693 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB2 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "T | \n", + "duck synonymous | \n", + "
7 | \n", + "Gln257Gln | \n", + "no known function | \n", + "no known function | \n", + "0.2150 | \n", + "21.5% | \n", + "PB2 | \n", + "no | \n", + "A | \n", + "798 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB2 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
8 | \n", + "Ala262Ala | \n", + "no known function | \n", + "no known function | \n", + "0.1028 | \n", + "10.28% | \n", + "PB2 | \n", + "no | \n", + "T | \n", + "813 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB2 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "C | \n", + "duck synonymous | \n", + "
10 | \n", + "Ala199Val | \n", + "This C-terminal region binds to vRNP. | \n", + "Influenza A_M1_RNP-binding-region_165(88) | \n", + "0.0456 | \n", + "4.56% | \n", + "M1 | \n", + "no | \n", + "C | \n", + "621 | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "AJJ9KL707F511_A_duck_Cambodia_PV027D1_2010_MP | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "T | \n", + "duck nonsynonymous | \n", + "
11 | \n", + "Ala307Ala | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.0331 | \n", + "3.31% | \n", + "PA | \n", + "no | \n", + "A | \n", + "941 | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "AJJ9KL707F511_A_duck_Cambodia_PV027D1_2010_PA | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
12 | \n", + "Arg334Arg | \n", + "no known function | \n", + "no known function | \n", + "0.0330 | \n", + "3.3% | \n", + "PB1 | \n", + "no | \n", + "G | \n", + "1026 | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "AJJ9KL707F511_A_duck_Cambodia_PV027D1_2010_PB1 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "A | \n", + "duck synonymous | \n", + "
13 | \n", + "Glu371Glu | \n", + "no known function | \n", + "no known function | \n", + "0.0259 | \n", + "2.59% | \n", + "PB1 | \n", + "no | \n", + "A | \n", + "1137 | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "AJJ9KL707F511_A_duck_Cambodia_PV027D1_2010_PB1 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
14 | \n", + "Lys129Glu | \n", + "no known function | \n", + "no known function | \n", + "0.0963 | \n", + "9.63% | \n", + "HA | \n", + "no | \n", + "A | \n", + "394 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_H5 | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "G | \n", + "duck nonsynonymous | \n", + "
15 | \n", + "Gly194Stop | \n", + "This C-terminal region binds to vRNP. | \n", + "Influenza A_M1_RNP-binding-region_165(88) | \n", + "0.0270 | \n", + "2.7% | \n", + "M1 | \n", + "no | \n", + "G | \n", + "580 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_MP | \n", + "duck | \n", + "stop_gained | \n", + "no known function | \n", + "T | \n", + "duck stop_gained | \n", + "
16 | \n", + "Ala199Val | \n", + "This C-terminal region binds to vRNP. | \n", + "Influenza A_M1_RNP-binding-region_165(88) | \n", + "0.0292 | \n", + "2.92% | \n", + "M1 | \n", + "no | \n", + "C | \n", + "596 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_MP | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "T | \n", + "duck nonsynonymous | \n", + "
18 | \n", + "Val96Val | \n", + "no known function | \n", + "no known function | \n", + "0.1795 | \n", + "17.95% | \n", + "neuraminidase | \n", + "no | \n", + "C | \n", + "297 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_N1 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "A | \n", + "duck synonymous | \n", + "
19 | \n", + "Ala403Val | \n", + "-N/A- | \n", + "Influenza A_NP-NP-association-region_371(95) | \n", + "0.0292 | \n", + "2.92% | \n", + "NP | \n", + "no | \n", + "C | \n", + "1241 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_NP | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "T | \n", + "duck nonsynonymous | \n", + "
20 | \n", + "Ala403Ala | \n", + "-N/A- | \n", + "Influenza A_NP-NP-association-region_371(95) | \n", + "0.0252 | \n", + "2.52% | \n", + "NP | \n", + "no | \n", + "A | \n", + "1242 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_NP | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "T | \n", + "duck synonymous | \n", + "
21 | \n", + "Glu371Glu | \n", + "no known function | \n", + "no known function | \n", + "0.0271 | \n", + "2.71% | \n", + "PB1 | \n", + "no | \n", + "A | \n", + "1121 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_PB1 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
22 | \n", + "Gly377Gly | \n", + "no known function | \n", + "no known function | \n", + "0.0300 | \n", + "3% | \n", + "HA | \n", + "no | \n", + "A | \n", + "1131 | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_H5 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "T | \n", + "duck synonymous | \n", + "
23 | \n", + "Lys242Lys | \n", + "no known function | \n", + "no known function | \n", + "0.0265 | \n", + "2.65% | \n", + "neuraminidase | \n", + "no | \n", + "A | \n", + "733 | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_N1 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
25 | \n", + "Phe55Leu | \n", + "no known function | \n", + "no known function | \n", + "0.0222 | \n", + "2.22% | \n", + "NEP | \n", + "no | \n", + "T | \n", + "646 | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_NS | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "C | \n", + "duck nonsynonymous | \n", + "
27 | \n", + "Ser57Ser | \n", + "no known function | \n", + "no known function | \n", + "0.0255 | \n", + "2.55% | \n", + "NEP | \n", + "no | \n", + "C | \n", + "654 | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_NS | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "T | \n", + "duck synonymous | \n", + "
28 | \n", + "Ala307Ala | \n", + "The C-terminus of PA interacts with the N-term... | \n", + "Influenza A_PA_PB1-binding-region_257(460) | \n", + "0.0728 | \n", + "7.28% | \n", + "PA | \n", + "no | \n", + "A | \n", + "945 | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_PA | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
29 | \n", + "Val363Ile | \n", + "no known function | \n", + "no known function | \n", + "0.0632 | \n", + "6.32% | \n", + "HA | \n", + "no | \n", + "G | \n", + "1103 | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "AH7E5L724F516_A_duck_Cambodia_Y0224304_2014_H5 | \n", + "duck | \n", + "nonsynonymous | \n", + "no known function | \n", + "A | \n", + "duck nonsynonymous | \n", + "
30 | \n", + "Glu448Glu | \n", + "no known function | \n", + "no known function | \n", + "0.2790 | \n", + "27.9% | \n", + "HA | \n", + "no | \n", + "A | \n", + "1360 | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "AH7E5L724F516_A_duck_Cambodia_Y0224304_2014_H5 | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "duck synonymous | \n", + "
31 | \n", + "Asn59Asn | \n", + "-N/A- | \n", + "Influenza A_NP_RNA-binding-domain_1(187) | \n", + "0.0390 | \n", + "3.9% | \n", + "NP | \n", + "no | \n", + "C | \n", + "207 | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "AH7E5L724F516_A_duck_Cambodia_Y0224304_2014_NP | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "T | \n", + "duck synonymous | \n", + "
32 | \n", + "Ile116Ile | \n", + "-N/A- | \n", + "Influenza A_NP_RNA-binding-domain_1(187) | \n", + "0.0320 | \n", + "3.2% | \n", + "NP | \n", + "no | \n", + "C | \n", + "378 | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "AH7E5L724F516_A_duck_Cambodia_Y0224304_2014_NP | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "T | \n", + "duck synonymous | \n", + "
33 | \n", + "Asn124Asn | \n", + "-N/A- | \n", + "Influenza A_NP_RNA-binding-domain_1(187) | \n", + "0.0353 | \n", + "3.53% | \n", + "NP | \n", + "no | \n", + "C | \n", + "402 | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "AH7E5L724F516_A_duck_Cambodia_Y0224304_2014_NP | \n", + "duck | \n", + "synonymous | \n", + "no known function | \n", + "T | \n", + "duck synonymous | \n", + "
... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "... | \n", + "
22 | \n", + "Phe363Phe | \n", + "This fragment is a domain co-crystalized with ... | \n", + "Influenza A_PB2_cap-binding-site_320(164) | \n", + "0.1000 | \n", + "10% | \n", + "PB2 | \n", + "yes | \n", + "C | \n", + "1115 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "AJ4MBL723F512_A_CAMBODIA_V0401301_2011_PB2 | \n", + "human | \n", + "synonymous | \n", + "replication | \n", + "T | \n", + "human synonymous | \n", + "
23 | \n", + "Gln392His | \n", + "This fragment is a domain co-crystalized with ... | \n", + "Influenza A_PB2_cap-binding-site_320(164) | \n", + "0.0361 | \n", + "3.61% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "1202 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "AJ4MBL723F512_A_CAMBODIA_V0401301_2011_PB2 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "C | \n", + "human nonsynonymous | \n", + "
24 | \n", + "Val478Val | \n", + "This region is required for nuclear localizati... | \n", + "Influenza A_PB2_nuclear-localization-motif_448... | \n", + "0.0390 | \n", + "3.9% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "1460 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "AJ4MBL723F512_A_CAMBODIA_V0401301_2011_PB2 | \n", + "human | \n", + "synonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human synonymous | \n", + "
25 | \n", + "Asp486Asp | \n", + "This region is required for nuclear localizati... | \n", + "Influenza A_PB2_nuclear-localization-motif_448... | \n", + "0.0230 | \n", + "2.3% | \n", + "PB2 | \n", + "yes | \n", + "T | \n", + "1484 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "AJ4MBL723F512_A_CAMBODIA_V0401301_2011_PB2 | \n", + "human | \n", + "synonymous | \n", + "interaction with host machinery | \n", + "C | \n", + "human synonymous | \n", + "
26 | \n", + "Glu142Gly | \n", + "This position has the potential to become a gl... | \n", + "Influenza A_H5_determinant-of-virulence_142(1) | \n", + "0.0251 | \n", + "2.51% | \n", + "HA | \n", + "yes | \n", + "A | \n", + "425 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "AJ4MBL718F513_A_CAMBODIA_V0417301_2011_H5 | \n", + "human | \n", + "nonsynonymous | \n", + "virulence | \n", + "G | \n", + "human nonsynonymous | \n", + "
27 | \n", + "Gln238Leu | \n", + "Introduction of Gln238Leu substitution in the ... | \n", + "Influenza A_H5_species-adaptation_238(1) | \n", + "0.0805 | \n", + "8.05% | \n", + "HA | \n", + "yes | \n", + "A | \n", + "713 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "AJ4MBL718F513_A_CAMBODIA_V0417301_2011_H5 | \n", + "human | \n", + "nonsynonymous | \n", + "receptor binding | \n", + "T | \n", + "human nonsynonymous | \n", + "
28 | \n", + "Glu47Lys | \n", + "The length of the NA stalk affects the host ra... | \n", + "Influenza A_N1_determinant-of-host-range-speci... | \n", + "0.0988 | \n", + "9.88% | \n", + "neuraminidase | \n", + "yes | \n", + "G | \n", + "146 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "AJ4MBL718F513_A_CAMBODIA_V0417301_2011_N1 | \n", + "human | \n", + "nonsynonymous | \n", + "virulence | \n", + "A | \n", + "human nonsynonymous | \n", + "
29 | \n", + "Glu627Lys | \n", + "A/Vietnam/1203/2004 isolate possessing 627Lys ... | \n", + "Influenza A_PB2_transmissibility_627(1) | \n", + "0.0720 | \n", + "7.2% | \n", + "PB2 | \n", + "yes | \n", + "G | \n", + "1891 | \n", + "A/Cambodia/W0112303/2012 | \n", + "AJ4MBL720F513_A_Cambodia_W0112303_2012_PB2 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "A | \n", + "human nonsynonymous | \n", + "
30 | \n", + "Asn701Asp | \n", + "Introduction of Asn701Asp substitution in PB2 ... | \n", + "Influenza A_PB2_tissue-tropism_701(1) | \n", + "0.1626 | \n", + "16.26% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "2113 | \n", + "A/Cambodia/W0112303/2012 | \n", + "AJ4MBL720F513_A_Cambodia_W0112303_2012_PB2 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "G | \n", + "human nonsynonymous | \n", + "
31 | \n", + "Ala150Val | \n", + "Introduction of Ala150Val substitution in the ... | \n", + "Influenza A_H5_species-adaptation_150(1) | \n", + "0.1517 | \n", + "15.17% | \n", + "HA | \n", + "yes | \n", + "C | \n", + "449 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_H5 | \n", + "human | \n", + "nonsynonymous | \n", + "receptor binding | \n", + "T | \n", + "human nonsynonymous | \n", + "
32 | \n", + "Gln238Arg | \n", + "Introduction of Gln238Leu substitution in the ... | \n", + "Influenza A_H5_species-adaptation_238(1) | \n", + "0.3729 | \n", + "37.29% | \n", + "HA | \n", + "yes | \n", + "A | \n", + "713 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_H5 | \n", + "human | \n", + "nonsynonymous | \n", + "receptor binding | \n", + "G | \n", + "human nonsynonymous | \n", + "
33 | \n", + "Glu92Glu | \n", + "Introduction of Glu92Asp in the A/HK/156/97 ba... | \n", + "Influenza A_NS1_Affect-type-I-IFN-pathway_92(1) | \n", + "0.0256 | \n", + "2.56% | \n", + "NS1 | \n", + "yes | \n", + "A | \n", + "298 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_NS | \n", + "human | \n", + "synonymous | \n", + "virulence | \n", + "G | \n", + "human synonymous | \n", + "
34 | \n", + "Lys353Arg | \n", + "Five unique non-synonymous mutations including... | \n", + "Influenza A_PB1_determinant-of-replication_353(1) | \n", + "0.0258 | \n", + "2.58% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "1078 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "G | \n", + "human nonsynonymous | \n", + "
35 | \n", + "Thr566Ser | \n", + "Five unique non-synonymous mutations including... | \n", + "Influenza A_PB1_determinant-of-replication_566(1) | \n", + "0.0538 | \n", + "5.38% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "1716 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "T | \n", + "human nonsynonymous | \n", + "
36 | \n", + "Asn265His | \n", + "A single mutation at this position of PB2 ca... | \n", + "Influenza A_PB2_determinant-of-temperature-sen... | \n", + "0.0282 | \n", + "2.82% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "816 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_PB2 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "C | \n", + "human nonsynonymous | \n", + "
37 | \n", + "Val494Val | \n", + "This region is required for nuclear localizati... | \n", + "Influenza A_PB2_nuclear-localization-motif_448... | \n", + "0.0199 | \n", + "1.99% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "1505 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_PB2 | \n", + "human | \n", + "synonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human synonymous | \n", + "
38 | \n", + "Val667Ile | \n", + "The presence of an V667I substitution enhances... | \n", + "Influenza A_PB2_determinant-of-transmission_66... | \n", + "0.0295 | \n", + "2.95% | \n", + "PB2 | \n", + "yes | \n", + "G | \n", + "2022 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_PB2 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "A | \n", + "human nonsynonymous | \n", + "
39 | \n", + "Ser714Gly | \n", + "The 701N and 714R, together with PA 615N, and ... | \n", + "Influenza A_PB2_determinants-of-host-range_701(2) | \n", + "0.0831 | \n", + "8.31% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "2163 | \n", + "A/Cambodia/X0125302/2013 | \n", + "AJ4MBL720F514_A_Cambodia_X0125302_2013_PB2 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "G | \n", + "human nonsynonymous | \n", + "
40 | \n", + "Arg199Arg | \n", + "The NS1 effector domain mediates interactions ... | \n", + "Influenza A_NS1_effector-domain_87(117) | \n", + "0.0453 | \n", + "4.53% | \n", + "NS1 | \n", + "yes | \n", + "A | \n", + "609 | \n", + "A/Cambodia/X0207301/2013 | \n", + "AJ4MBL723F514_A_Cambodia_X0207301_2013_NS | \n", + "human | \n", + "synonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human synonymous | \n", + "
41 | \n", + "Glu47Gly | \n", + "Residues 47 and 51 of NS2 are associated with ... | \n", + "Influenza A_NS2_determinants-of-virulence_47(2) | \n", + "0.0453 | \n", + "4.53% | \n", + "NEP | \n", + "yes | \n", + "A | \n", + "609 | \n", + "A/Cambodia/X0207301/2013 | \n", + "AJ4MBL723F514_A_Cambodia_X0207301_2013_NS | \n", + "human | \n", + "nonsynonymous | \n", + "virulence | \n", + "G | \n", + "human nonsynonymous | \n", + "
42 | \n", + "Ser631Gly | \n", + "Passaging of HK156 viruses in mouse brain and ... | \n", + "Influenza A_PA_determinant-of-virulence_631(1) | \n", + "0.0190 | \n", + "1.9% | \n", + "PA | \n", + "yes | \n", + "A | \n", + "1903 | \n", + "A/Cambodia/X0207301/2013 | \n", + "AJ4MBL723F514_A_Cambodia_X0207301_2013_PA | \n", + "human | \n", + "nonsynonymous | \n", + "virulence | \n", + "G | \n", + "human nonsynonymous | \n", + "
43 | \n", + "Ser148Ser | \n", + "These residues are important in receptor recog... | \n", + "Influenza A_H5_sialic-acid-binding-site_107(14) | \n", + "0.1037 | \n", + "10.37% | \n", + "HA | \n", + "yes | \n", + "T | \n", + "444 | \n", + "A/Cambodia/X0219301/2013 | \n", + "AJ4MBL718F515_A_Cambodia_X0219301_2013_H5 | \n", + "human | \n", + "synonymous | \n", + "receptor binding | \n", + "C | \n", + "human synonymous | \n", + "
44 | \n", + "Thr85Ala | \n", + "These residues are responsible for the enhance... | \n", + "Influenza A_PA_Polymerase-activity-in-mammalia... | \n", + "0.0236 | \n", + "2.36% | \n", + "PA | \n", + "yes | \n", + "A | \n", + "265 | \n", + "A/Cambodia/X0219301/2013 | \n", + "AJ4MBL718F515_A_Cambodia_X0219301_2013_PA | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "G | \n", + "human nonsynonymous | \n", + "
45 | \n", + "Ala150Thr | \n", + "Introduction of Ala150Val substitution in the ... | \n", + "Influenza A_H5_species-adaptation_150(1) | \n", + "0.0165 | \n", + "1.65% | \n", + "HA | \n", + "yes | \n", + "G | \n", + "448 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_H5 | \n", + "human | \n", + "nonsynonymous | \n", + "receptor binding | \n", + "A | \n", + "human nonsynonymous | \n", + "
46 | \n", + "Cys50Tyr | \n", + "The viruses lacking the palmitoylation site at... | \n", + "Influenza A_M2_determinant-of-virulence_50(1) | \n", + "0.0188 | \n", + "1.88% | \n", + "M2 | \n", + "yes | \n", + "G | \n", + "861 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_MP | \n", + "human | \n", + "nonsynonymous | \n", + "virulence | \n", + "A | \n", + "human nonsynonymous | \n", + "
47 | \n", + "Lys121Lys | \n", + "The helix-helix ED conformation is conserved i... | \n", + "Influenza A_NS1_ED-helix-dimer_106(17) | \n", + "0.0178 | \n", + "1.78% | \n", + "NS1 | \n", + "yes | \n", + "A | \n", + "379 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_NS | \n", + "human | \n", + "synonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human synonymous | \n", + "
48 | \n", + "Arg211Gly | \n", + "-N/A- | \n", + "Influenza A_PB1_nuclear-localization-motif_203... | \n", + "0.0189 | \n", + "1.89% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "631 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human nonsynonymous | \n", + "
49 | \n", + "Arg215Gly | \n", + "-N/A- | \n", + "Influenza A_PB1_nuclear-localization-motif_203... | \n", + "0.0191 | \n", + "1.91% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "643 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human nonsynonymous | \n", + "
50 | \n", + "Lys353Glu | \n", + "Five unique non-synonymous mutations including... | \n", + "Influenza A_PB1_determinant-of-replication_353(1) | \n", + "0.0169 | \n", + "1.69% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "1057 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "G | \n", + "human nonsynonymous | \n", + "
51 | \n", + "Arg479Arg | \n", + "This region is required for nuclear localizati... | \n", + "Influenza A_PB2_nuclear-localization-motif_448... | \n", + "0.0382 | \n", + "3.82% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "1451 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB2 | \n", + "human | \n", + "synonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human synonymous | \n", + "
268 rows × 16 columns
\n", + "\n", + " | coding_region_change | \n", + "description | \n", + "feature_name | \n", + "frequency | \n", + "frequency(%) | \n", + "gene | \n", + "host_specific | \n", + "reference_allele | \n", + "reference_position | \n", + "sample | \n", + "sampleid | \n", + "species | \n", + "synonymous_nonsynonymous | \n", + "type | \n", + "variant_allele | \n", + "species_ns | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
47 | \n", + "Lys121Lys | \n", + "The helix-helix ED conformation is conserved i... | \n", + "Influenza A_NS1_ED-helix-dimer_106(17) | \n", + "0.0178 | \n", + "1.78% | \n", + "NS1 | \n", + "yes | \n", + "A | \n", + "379 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_NS | \n", + "human | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "human synonymous | \n", + "
48 | \n", + "Arg211Gly | \n", + "-N/A- | \n", + "Influenza A_PB1_nuclear-localization-motif_203... | \n", + "0.0189 | \n", + "1.89% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "631 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human nonsynonymous | \n", + "
49 | \n", + "Arg215Gly | \n", + "-N/A- | \n", + "Influenza A_PB1_nuclear-localization-motif_203... | \n", + "0.0191 | \n", + "1.91% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "643 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "interaction with host machinery | \n", + "G | \n", + "human nonsynonymous | \n", + "
50 | \n", + "Lys353Glu | \n", + "Five unique non-synonymous mutations including... | \n", + "Influenza A_PB1_determinant-of-replication_353(1) | \n", + "0.0169 | \n", + "1.69% | \n", + "PB1 | \n", + "yes | \n", + "A | \n", + "1057 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB1 | \n", + "human | \n", + "nonsynonymous | \n", + "replication | \n", + "G | \n", + "human nonsynonymous | \n", + "
51 | \n", + "Arg479Arg | \n", + "This region is required for nuclear localizati... | \n", + "Influenza A_PB2_nuclear-localization-motif_448... | \n", + "0.0382 | \n", + "3.82% | \n", + "PB2 | \n", + "yes | \n", + "A | \n", + "1451 | \n", + "A/Cambodia/X1030304/2013 | \n", + "AJ4MBL720F516_A_Cambodia_X1030304_2013_PB2 | \n", + "human | \n", + "synonymous | \n", + "no known function | \n", + "G | \n", + "human synonymous | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "feature_name | \n", + "description | \n", + "host_specific | \n", + "species | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
9 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB2 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PB2 | \n", + "1350 | \n", + "C | \n", + "T | \n", + "Asp441Asp | \n", + "synonymous | \n", + "3.19% | \n", + "0.0319 | \n", + "Influenza A_PB2_cap-binding-site_320(164) | \n", + "This fragment is a domain co-crystalized with ... | \n", + "yes | \n", + "duck | \n", + "
17 | \n", + "AJJ9KL707F513_A_duck_Cambodia_083D1_2011_N1 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "neuraminidase | \n", + "181 | \n", + "A | \n", + "G | \n", + "Lys58Glu | \n", + "nonsynonymous | \n", + "17.89% | \n", + "0.1789 | \n", + "Influenza A_N1_determinant-of-host-range-speci... | \n", + "The length of the NA stalk affects the host ra... | \n", + "yes | \n", + "duck | \n", + "
24 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_NS | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "NS1 | \n", + "646 | \n", + "T | \n", + "C | \n", + "Leu207Pro | \n", + "nonsynonymous | \n", + "2.22% | \n", + "0.0222 | \n", + "Influenza A_NS1_flexible-tail_204(27) | \n", + "The flexible tail appears to be unstructured a... | \n", + "yes | \n", + "duck | \n", + "
26 | \n", + "AJJ9KL707F515_A_duck_Cambodia_Y0224301_2014_NS | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "NS1 | \n", + "654 | \n", + "C | \n", + "T | \n", + "Pro210Ser | \n", + "nonsynonymous | \n", + "2.55% | \n", + "0.0255 | \n", + "Influenza A_NS1_flexible-tail_204(27) | \n", + "The flexible tail appears to be unstructured a... | \n", + "yes | \n", + "duck | \n", + "
36 | \n", + "AH7E5L724F516_A_duck_Cambodia_Y0224304_2014_NP | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "NP | \n", + "633 | \n", + "C | \n", + "T | \n", + "Ile201Ile | \n", + "synonymous | \n", + "9.23% | \n", + "0.0923 | \n", + "Influenza A_NP_nuclear-localization-signal2_19... | \n", + "This region is a nuclear targeting motif that ... | \n", + "yes | \n", + "duck | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "
\n", + " | sampleid | \n", + "sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "original_aa | \n", + "amino_acid_site_change | \n", + "aa_site | \n", + "new_aa | \n", + "amino_acid_site | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "Ala | \n", + "HA 265 Thr | \n", + "265 | \n", + "Thr | \n", + "HA 265 | \n", + "
1 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "Gln | \n", + "NP 117 Arg | \n", + "117 | \n", + "Arg | \n", + "NP 117 | \n", + "
2 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "Ala | \n", + "PA 307 Ala | \n", + "307 | \n", + "Ala | \n", + "PA 307 | \n", + "
3 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "Arg | \n", + "PA 367 Lys | \n", + "367 | \n", + "Lys | \n", + "PA 367 | \n", + "
4 | \n", + "AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "Pro | \n", + "PA 530 Pro | \n", + "530 | \n", + "Pro | \n", + "PA 530 | \n", + "
amino_acid_site | \n", + "HA 102 | \n", + "HA 129 | \n", + "HA 141 | \n", + "HA 142 | \n", + "HA 150 | \n", + "HA 166 | \n", + "HA 171 | \n", + "HA 172 | \n", + "HA 173 | \n", + "HA 176 | \n", + "... | \n", + "neuraminidase 344 | \n", + "neuraminidase 353 | \n", + "neuraminidase 364 | \n", + "neuraminidase 374 | \n", + "neuraminidase 418 | \n", + "neuraminidase 433 | \n", + "neuraminidase 47 | \n", + "neuraminidase 58 | \n", + "neuraminidase 91 | \n", + "neuraminidase 96 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
sample | \n", + "\n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " |
A/CAMBODIA/V0401301/2011 | \n", + "NaN | \n", + "NaN | \n", + "0.0756 | \n", + "NaN | \n", + "0.2024 | \n", + "0.0428 | \n", + "0.033 | \n", + "NaN | \n", + "0.0504 | \n", + "0.0426 | \n", + "... | \n", + "0.03335 | \n", + "NaN | \n", + "0.0242 | \n", + "0.0309 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/CAMBODIA/V0417301/2011 | \n", + "NaN | \n", + "NaN | \n", + "0.1750 | \n", + "0.032 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "0.0889 | \n", + "NaN | \n", + "0.037 | \n", + "NaN | \n", + "
A/Cambodia/W0112303/2012 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/Cambodia/X0125302/2013 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "0.1509 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "0.0463 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/Cambodia/X0128304/2013 | \n", + "NaN | \n", + "NaN | \n", + "0.0569 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "0.115 | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "0.0451 | \n", + "NaN | \n", + "NaN | \n", + "0.0252 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/Cambodia/X0207301/2013 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/Cambodia/X0219301/2013 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/Cambodia/X1030304/2013 | \n", + "0.0179 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/duck/Cambodia/083D1/2011 | \n", + "NaN | \n", + "0.0963 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "0.1789 | \n", + "NaN | \n", + "0.1795 | \n", + "
A/duck/Cambodia/381W11M4/2013 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/duck/Cambodia/PV027D1/2010 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/duck/Cambodia/Y0224301/2014 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
A/duck/Cambodia/Y0224304/2014 | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "
13 rows × 218 columns
\n", + "amino_acid_site | \n", + "HA 102 | \n", + "HA 129 | \n", + "HA 141 | \n", + "HA 142 | \n", + "HA 150 | \n", + "HA 166 | \n", + "HA 171 | \n", + "HA 172 | \n", + "HA 173 | \n", + "HA 176 | \n", + "... | \n", + "neuraminidase 344 | \n", + "neuraminidase 353 | \n", + "neuraminidase 364 | \n", + "neuraminidase 374 | \n", + "neuraminidase 418 | \n", + "neuraminidase 433 | \n", + "neuraminidase 47 | \n", + "neuraminidase 58 | \n", + "neuraminidase 91 | \n", + "neuraminidase 96 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
sample | \n", + "\n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " |
A/CAMBODIA/V0401301/2011 | \n", + "0.0 | \n", + "0.0 | \n", + "0.0756 | \n", + "0.000 | \n", + "0.2024 | \n", + "0.0428 | \n", + "0.033 | \n", + "0.000 | \n", + "0.0504 | \n", + "0.0426 | \n", + "... | \n", + "0.03335 | \n", + "0.0000 | \n", + "0.0242 | \n", + "0.0309 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0 | \n", + "0.000 | \n", + "0.0 | \n", + "
A/CAMBODIA/V0417301/2011 | \n", + "0.0 | \n", + "0.0 | \n", + "0.1750 | \n", + "0.032 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.000 | \n", + "0.000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "... | \n", + "0.00000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0889 | \n", + "0.0 | \n", + "0.037 | \n", + "0.0 | \n", + "
A/Cambodia/W0112303/2012 | \n", + "0.0 | \n", + "0.0 | \n", + "0.0000 | \n", + "0.000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.000 | \n", + "0.000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "... | \n", + "0.00000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0 | \n", + "0.000 | \n", + "0.0 | \n", + "
A/Cambodia/X0125302/2013 | \n", + "0.0 | \n", + "0.0 | \n", + "0.0000 | \n", + "0.000 | \n", + "0.1509 | \n", + "0.0000 | \n", + "0.000 | \n", + "0.000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "... | \n", + "0.00000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0463 | \n", + "0.0000 | \n", + "0.0 | \n", + "0.000 | \n", + "0.0 | \n", + "
A/Cambodia/X0128304/2013 | \n", + "0.0 | \n", + "0.0 | \n", + "0.0569 | \n", + "0.000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.000 | \n", + "0.115 | \n", + "0.0000 | \n", + "0.0000 | \n", + "... | \n", + "0.00000 | \n", + "0.0451 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0252 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0 | \n", + "0.000 | \n", + "0.0 | \n", + "
5 rows × 218 columns
\n", + "\n", + " | samples | \n", + "HA 141 | \n", + "HA 150 | \n", + "HA 238 | \n", + "HA 265 | \n", + "HA 307 | \n", + "HA 357 | \n", + "M1 199 | \n", + "NP 201 | \n", + "NS1 92 | \n", + "PA 237 | \n", + "PA 307 | \n", + "PB1 371 | \n", + "PB2 441 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "0.0756 | \n", + "0.2024 | \n", + "0.0280 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0281 | \n", + "0.0000 | \n", + "0.0234 | \n", + "0.0467 | \n", + "0.0433 | \n", + "0.0000 | \n", + "
1 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "0.1750 | \n", + "0.0000 | \n", + "0.0845 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0635 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0436 | \n", + "0.0438 | \n", + "0.0000 | \n", + "0.0000 | \n", + "
2 | \n", + "A/Cambodia/W0112303/2012 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0562 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0364 | \n", + "0.0285 | \n", + "0.0000 | \n", + "0.0000 | \n", + "
3 | \n", + "A/Cambodia/X0125302/2013 | \n", + "0.0000 | \n", + "0.1509 | \n", + "0.4030 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0249 | \n", + "0.0000 | \n", + "0.0250 | \n", + "0.0000 | \n", + "0.0000 | \n", + "
4 | \n", + "A/Cambodia/X0128304/2013 | \n", + "0.0569 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.2906 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "
5 | \n", + "A/Cambodia/X0207301/2013 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.1982 | \n", + "0.0583 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0280 | \n", + "0.0315 | \n", + "0.0000 | \n", + "
6 | \n", + "A/Cambodia/X0219301/2013 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0237 | \n", + "0.0000 | \n", + "0.0000 | \n", + "
7 | \n", + "A/Cambodia/X1030304/2013 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0665 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "
8 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0292 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0271 | \n", + "0.0000 | \n", + "
9 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0328 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0455 | \n", + "0.0000 | \n", + "0.0319 | \n", + "
10 | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0456 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0331 | \n", + "0.0259 | \n", + "0.0000 | \n", + "
11 | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0728 | \n", + "0.0000 | \n", + "0.0000 | \n", + "
12 | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0923 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0000 | \n", + "0.0816 | \n", + "
\n", + " | samples | \n", + "variable | \n", + "value | \n", + "
---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "HA 141 | \n", + "0.0756 | \n", + "
1 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "HA 141 | \n", + "0.1750 | \n", + "
2 | \n", + "A/Cambodia/W0112303/2012 | \n", + "HA 141 | \n", + "0.0000 | \n", + "
3 | \n", + "A/Cambodia/X0125302/2013 | \n", + "HA 141 | \n", + "0.0000 | \n", + "
4 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA 141 | \n", + "0.0569 | \n", + "
\n", + " | samples | \n", + "variable | \n", + "value | \n", + "gene | \n", + "site | \n", + "
---|---|---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "HA 141 | \n", + "0.0756 | \n", + "HA | \n", + "141 | \n", + "
1 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "HA 141 | \n", + "0.1750 | \n", + "HA | \n", + "141 | \n", + "
2 | \n", + "A/Cambodia/W0112303/2012 | \n", + "HA 141 | \n", + "0.0000 | \n", + "HA | \n", + "141 | \n", + "
3 | \n", + "A/Cambodia/X0125302/2013 | \n", + "HA 141 | \n", + "0.0000 | \n", + "HA | \n", + "141 | \n", + "
4 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA 141 | \n", + "0.0569 | \n", + "HA | \n", + "141 | \n", + "
\n", + " | samples | \n", + "variable | \n", + "value | \n", + "gene | \n", + "site | \n", + "species | \n", + "
---|---|---|---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "HA 141 | \n", + "0.0756 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "
1 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "HA 141 | \n", + "0.1750 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "
2 | \n", + "A/Cambodia/W0112303/2012 | \n", + "HA 141 | \n", + "0.0000 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "
3 | \n", + "A/Cambodia/X0125302/2013 | \n", + "HA 141 | \n", + "0.0000 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "
4 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA 141 | \n", + "0.0569 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "
\n", + " | samples | \n", + "variable | \n", + "value | \n", + "gene | \n", + "site | \n", + "species | \n", + "label | \n", + "
---|---|---|---|---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "HA 141 | \n", + "0.0756 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "
1 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "HA 141 | \n", + "0.1750 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "
2 | \n", + "A/Cambodia/W0112303/2012 | \n", + "HA 141 | \n", + "NaN | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "
3 | \n", + "A/Cambodia/X0125302/2013 | \n", + "HA 141 | \n", + "NaN | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "
4 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA 141 | \n", + "0.0569 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "
\n", + " | samples | \n", + "syn_nonsyn | \n", + "value | \n", + "variable | \n", + "
---|---|---|---|---|
0 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "nonsynonymous | \n", + "0.0328 | \n", + "HA 265 | \n", + "
1 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "nonsynonymous | \n", + "0.2043 | \n", + "NP 117 | \n", + "
2 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "synonymous | \n", + "0.0455 | \n", + "PA 307 | \n", + "
3 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "nonsynonymous | \n", + "0.1900 | \n", + "PA 367 | \n", + "
4 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "synonymous | \n", + "0.0438 | \n", + "PA 530 | \n", + "
\n", + " | samples | \n", + "variable | \n", + "value | \n", + "gene | \n", + "site | \n", + "species | \n", + "label | \n", + "syn_nonsyn | \n", + "color | \n", + "
---|---|---|---|---|---|---|---|---|---|
0 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "HA 141 | \n", + "0.0756 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "nonsynonymous | \n", + "human_nonsynonymous | \n", + "
1 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "HA 141 | \n", + "0.1750 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "nonsynonymous | \n", + "human_nonsynonymous | \n", + "
2 | \n", + "A/Cambodia/W0112303/2012 | \n", + "HA 141 | \n", + "NaN | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "NaN | \n", + "human_synonymous | \n", + "
3 | \n", + "A/Cambodia/X0125302/2013 | \n", + "HA 141 | \n", + "NaN | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "NaN | \n", + "human_synonymous | \n", + "
4 | \n", + "A/Cambodia/X0128304/2013 | \n", + "HA 141 | \n", + "0.0569 | \n", + "HA | \n", + "141 | \n", + "human | \n", + "HA\\n141 | \n", + "synonymous | \n", + "human_synonymous | \n", + "
\n", + " | index | \n", + "PB2 | \n", + "PB1 | \n", + "PA | \n", + "HA | \n", + "NP | \n", + "NA | \n", + "M1 | \n", + "M2 | \n", + "NS1 | \n", + "NEP | \n", + "full_genome | \n", + "host | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "3 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
1 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "human | \n", + "
2 | \n", + "2 | \n", + "0 | \n", + "1 | \n", + "2 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "6 | \n", + "human | \n", + "
3 | \n", + "3 | \n", + "0 | \n", + "0 | \n", + "2 | \n", + "2 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
4 | \n", + "4 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
\n", + " | Unnamed: 0 | \n", + "index | \n", + "PB2 | \n", + "PB1 | \n", + "PA | \n", + "HA | \n", + "NP | \n", + "NA | \n", + "M1 | \n", + "M2 | \n", + "NS1 | \n", + "NEP | \n", + "full_genome | \n", + "host | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "3 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
1 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "human | \n", + "
2 | \n", + "2 | \n", + "2 | \n", + "0 | \n", + "1 | \n", + "2 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "6 | \n", + "human | \n", + "
3 | \n", + "3 | \n", + "3 | \n", + "0 | \n", + "0 | \n", + "2 | \n", + "2 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
4 | \n", + "4 | \n", + "4 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
\n", + " | index | \n", + "PB2 | \n", + "PB1 | \n", + "PA | \n", + "HA | \n", + "NP | \n", + "NA | \n", + "M1 | \n", + "M2 | \n", + "NS1 | \n", + "NEP | \n", + "full_genome | \n", + "host | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0 | \n", + "2 | \n", + "2 | \n", + "2 | \n", + "5 | \n", + "2 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "15 | \n", + "human | \n", + "
1 | \n", + "1 | \n", + "2 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "1 | \n", + "1 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "7 | \n", + "human | \n", + "
2 | \n", + "2 | \n", + "1 | \n", + "1 | \n", + "2 | \n", + "6 | \n", + "3 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "14 | \n", + "human | \n", + "
3 | \n", + "3 | \n", + "1 | \n", + "2 | \n", + "1 | \n", + "5 | \n", + "0 | \n", + "2 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "12 | \n", + "human | \n", + "
4 | \n", + "4 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "3 | \n", + "0 | \n", + "2 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "8 | \n", + "human | \n", + "
\n", + " | Unnamed: 0 | \n", + "index | \n", + "PB2 | \n", + "PB1 | \n", + "PA | \n", + "HA | \n", + "NP | \n", + "NA | \n", + "M1 | \n", + "M2 | \n", + "NS1 | \n", + "NEP | \n", + "full_genome | \n", + "host | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "3 | \n", + "1 | \n", + "3 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "9 | \n", + "human | \n", + "
1 | \n", + "1 | \n", + "1 | \n", + "1 | \n", + "2 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
2 | \n", + "2 | \n", + "2 | \n", + "1 | \n", + "1 | \n", + "3 | \n", + "3 | \n", + "3 | \n", + "3 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "15 | \n", + "human | \n", + "
3 | \n", + "3 | \n", + "3 | \n", + "2 | \n", + "1 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "6 | \n", + "human | \n", + "
4 | \n", + "4 | \n", + "4 | \n", + "0 | \n", + "0 | \n", + "1 | \n", + "2 | \n", + "1 | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "0 | \n", + "5 | \n", + "human | \n", + "
\n", + " | coding_region_change | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "gene | \n", + "site | \n", + "
---|---|---|---|---|---|---|
0 | \n", + "*569K | \n", + "22 | \n", + "1 | \n", + "6 | \n", + "HA | \n", + "HA *569K | \n", + "
1 | \n", + "*569R | \n", + "2 | \n", + "0 | \n", + "0 | \n", + "HA | \n", + "HA *569R | \n", + "
2 | \n", + "*569S | \n", + "1 | \n", + "0 | \n", + "0 | \n", + "HA | \n", + "HA *569S | \n", + "
3 | \n", + "*569Y | \n", + "0 | \n", + "1 | \n", + "0 | \n", + "HA | \n", + "HA *569Y | \n", + "
4 | \n", + "A102D | \n", + "2 | \n", + "0 | \n", + "0 | \n", + "HA | \n", + "HA A102D | \n", + "
\n", + " | coding_region_change | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "gene | \n", + "site | \n", + "
---|---|---|---|---|---|---|
251 | \n", + "E627K | \n", + "15 | \n", + "28 | \n", + "8 | \n", + "PB2 | \n", + "PB2 E627K | \n", + "
\n", + " | sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|
sampleid | \n", + "\n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " |
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "939 | \n", + "A | \n", + "G | \n", + "Ala307Ala | \n", + "synonymous | \n", + "4.55% | \n", + "0.0455 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1608 | \n", + "G | \n", + "A | \n", + "Pro530Pro | \n", + "synonymous | \n", + "4.38% | \n", + "0.0438 | \n", + "NaN | \n", + "
\n", + " | sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|
sampleid | \n", + "\n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " |
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "Ala265Thr | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "Gln117Arg | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "Arg367Lys | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB1 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PB1 | \n", + "968 | \n", + "A | \n", + "G | \n", + "Met317Val | \n", + "nonsynonymous | \n", + "4.21% | \n", + "0.0421 | \n", + "NaN | \n", + "
AJJ9KL707F511_A_duck_Cambodia_PV027D1_2010_MP | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "M1 | \n", + "621 | \n", + "C | \n", + "T | \n", + "Ala199Val | \n", + "nonsynonymous | \n", + "4.56% | \n", + "0.0456 | \n", + "NaN | \n", + "
\n", + " | sample | \n", + "gene | \n", + "reference_position | \n", + "reference_allele | \n", + "variant_allele | \n", + "coding_region_change | \n", + "synonymous_nonsynonymous | \n", + "frequency(%) | \n", + "frequency | \n", + "Unnamed: 10 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|
sampleid | \n", + "\n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " | \n", + " |
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_H5 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "HA | \n", + "793 | \n", + "G | \n", + "A | \n", + "A265T | \n", + "nonsynonymous | \n", + "3.28% | \n", + "0.0328 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_NP | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "NP | \n", + "384 | \n", + "A | \n", + "G | \n", + "N117R | \n", + "nonsynonymous | \n", + "20.43% | \n", + "0.2043 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PA | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PA | \n", + "1118 | \n", + "G | \n", + "A | \n", + "R367K | \n", + "nonsynonymous | \n", + "19% | \n", + "0.1900 | \n", + "NaN | \n", + "
AJJ9KL706F510_A_duck_Cambodia_381W11M4_2013_PB1 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "PB1 | \n", + "968 | \n", + "A | \n", + "G | \n", + "M317V | \n", + "nonsynonymous | \n", + "4.21% | \n", + "0.0421 | \n", + "NaN | \n", + "
AJJ9KL707F511_A_duck_Cambodia_PV027D1_2010_MP | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "M1 | \n", + "621 | \n", + "C | \n", + "T | \n", + "A199V | \n", + "nonsynonymous | \n", + "4.56% | \n", + "0.0456 | \n", + "NaN | \n", + "
\n", + " | coding_region_change | \n", + "originating_species | \n", + "gene | \n", + "site | \n", + "
---|---|---|---|---|
0 | \n", + "A265T | \n", + "duck | \n", + "HA | \n", + "HA A265T | \n", + "
1 | \n", + "N117R | \n", + "duck | \n", + "NP | \n", + "NP N117R | \n", + "
2 | \n", + "R367K | \n", + "duck | \n", + "PA | \n", + "PA R367K | \n", + "
3 | \n", + "M317V | \n", + "duck | \n", + "PB1 | \n", + "PB1 M317V | \n", + "
4 | \n", + "A199V | \n", + "duck | \n", + "M1 | \n", + "M1 A199V | \n", + "
\n", + " | coding_region_change | \n", + "gene | \n", + "originating_species | \n", + "site | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "
---|---|---|---|---|---|---|---|
0 | \n", + "A265T | \n", + "HA | \n", + "duck | \n", + "HA A265T | \n", + "5.0 | \n", + "0.0 | \n", + "0.0 | \n", + "
1 | \n", + "N117R | \n", + "NP | \n", + "duck | \n", + "NP N117R | \n", + "0.0 | \n", + "0.0 | \n", + "0.0 | \n", + "
2 | \n", + "R367K | \n", + "PA | \n", + "duck | \n", + "PA R367K | \n", + "16.0 | \n", + "2.0 | \n", + "1.0 | \n", + "
3 | \n", + "M317V | \n", + "PB1 | \n", + "duck | \n", + "PB1 M317V | \n", + "22.0 | \n", + "0.0 | \n", + "0.0 | \n", + "
4 | \n", + "A199V | \n", + "M1 | \n", + "duck | \n", + "M1 A199V | \n", + "1.0 | \n", + "0.0 | \n", + "0.0 | \n", + "
\n", + " | coding_region_change | \n", + "gene | \n", + "originating_species | \n", + "site | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "
---|---|---|---|---|---|---|---|
55 | \n", + "N198S | \n", + "HA | \n", + "human | \n", + "HA N198S | \n", + "4.0 | \n", + "3.0 | \n", + "0.0 | \n", + "
\n", + " | coding_region_change | \n", + "gene | \n", + "originating_species | \n", + "site | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "site2 | \n", + "
---|---|---|---|---|---|---|---|---|
3 | \n", + "M317V | \n", + "PB1 | \n", + "duck | \n", + "PB1 M317V | \n", + "22.0 | \n", + "0.0 | \n", + "0.0 | \n", + "317V | \n", + "
2 | \n", + "R367K | \n", + "PA | \n", + "duck | \n", + "PA R367K | \n", + "16.0 | \n", + "2.0 | \n", + "1.0 | \n", + "367K | \n", + "
5 | \n", + "K129E | \n", + "HA | \n", + "duck | \n", + "HA K129E | \n", + "1.0 | \n", + "0.0 | \n", + "0.0 | \n", + "129E | \n", + "
0 | \n", + "A265T | \n", + "HA | \n", + "duck | \n", + "HA A265T | \n", + "5.0 | \n", + "0.0 | \n", + "0.0 | \n", + "265T | \n", + "
12 | \n", + "V363I | \n", + "HA | \n", + "duck | \n", + "HA V363I | \n", + "0.0 | \n", + "0.0 | \n", + "0.0 | \n", + "363I | \n", + "
\n", + " | coding_region_change | \n", + "gene | \n", + "originating_species | \n", + "site | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "site2 | \n", + "end_in_human | \n", + "
---|---|---|---|---|---|---|---|---|---|
3 | \n", + "M317V | \n", + "PB1 | \n", + "duck | \n", + "PB1 M317V | \n", + "22.0 | \n", + "0.0 | \n", + "0.0 | \n", + "317V | \n", + "0.0 | \n", + "
2 | \n", + "R367K | \n", + "PA | \n", + "duck | \n", + "PA R367K | \n", + "16.0 | \n", + "2.0 | \n", + "1.0 | \n", + "367K | \n", + "3.0 | \n", + "
5 | \n", + "K129E | \n", + "HA | \n", + "duck | \n", + "HA K129E | \n", + "1.0 | \n", + "0.0 | \n", + "0.0 | \n", + "129E | \n", + "0.0 | \n", + "
0 | \n", + "A265T | \n", + "HA | \n", + "duck | \n", + "HA A265T | \n", + "5.0 | \n", + "0.0 | \n", + "0.0 | \n", + "265T | \n", + "0.0 | \n", + "
12 | \n", + "V363I | \n", + "HA | \n", + "duck | \n", + "HA V363I | \n", + "0.0 | \n", + "0.0 | \n", + "0.0 | \n", + "363I | \n", + "0.0 | \n", + "
\n", + " | originating_species | \n", + "site | \n", + "variable | \n", + "value | \n", + "
---|---|---|---|---|
37 | \n", + "human | \n", + "HA A150V | \n", + "bird_to_bird | \n", + "1.0 | \n", + "
97 | \n", + "human | \n", + "HA A150V | \n", + "end_in_human | \n", + "8.0 | \n", + "
3 | \n", + "duck | \n", + "HA A265T | \n", + "bird_to_bird | \n", + "5.0 | \n", + "
63 | \n", + "duck | \n", + "HA A265T | \n", + "end_in_human | \n", + "0.0 | \n", + "
36 | \n", + "human | \n", + "HA E142G | \n", + "bird_to_bird | \n", + "3.0 | \n", + "
\n", + " | originating_species | \n", + "site | \n", + "variable | \n", + "value | \n", + "
---|---|---|---|---|
3 | \n", + "duck | \n", + "HA A265T | \n", + "bird_to_bird | \n", + "5.0 | \n", + "
63 | \n", + "duck | \n", + "HA A265T | \n", + "end_in_human | \n", + "0.0 | \n", + "
2 | \n", + "duck | \n", + "HA K129E | \n", + "bird_to_bird | \n", + "1.0 | \n", + "
62 | \n", + "duck | \n", + "HA K129E | \n", + "end_in_human | \n", + "0.0 | \n", + "
4 | \n", + "duck | \n", + "M1 A199V | \n", + "bird_to_bird | \n", + "1.0 | \n", + "
\n", + " | coding_region_change | \n", + "gene | \n", + "originating_species | \n", + "site | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "site2 | \n", + "end_in_human | \n", + "
---|---|---|---|---|---|---|---|---|---|
3 | \n", + "M317V | \n", + "PB1 | \n", + "duck | \n", + "PB1 M317V | \n", + "22.0 | \n", + "0.0 | \n", + "0.0 | \n", + "317V | \n", + "0.0 | \n", + "
2 | \n", + "R367K | \n", + "PA | \n", + "duck | \n", + "PA R367K | \n", + "16.0 | \n", + "2.0 | \n", + "1.0 | \n", + "367K | \n", + "3.0 | \n", + "
5 | \n", + "K129E | \n", + "HA | \n", + "duck | \n", + "HA K129E | \n", + "1.0 | \n", + "0.0 | \n", + "0.0 | \n", + "129E | \n", + "0.0 | \n", + "
0 | \n", + "A265T | \n", + "HA | \n", + "duck | \n", + "HA A265T | \n", + "5.0 | \n", + "0.0 | \n", + "0.0 | \n", + "265T | \n", + "0.0 | \n", + "
4 | \n", + "A199V | \n", + "M1 | \n", + "duck | \n", + "M1 A199V | \n", + "1.0 | \n", + "0.0 | \n", + "0.0 | \n", + "199V | \n", + "0.0 | \n", + "
\n", + " | coding_region_change | \n", + "p_value | \n", + "significance | \n", + "
---|---|---|---|
0 | \n", + "A150V | \n", + "1.455499e-08 | \n", + "**** | \n", + "
1 | \n", + "A199V | \n", + "1.000000e+00 | \n", + "\n", + " |
2 | \n", + "A227T | \n", + "6.337857e-01 | \n", + "\n", + " |
3 | \n", + "A265T | \n", + "1.000000e+00 | \n", + "\n", + " |
4 | \n", + "C50Y | \n", + "1.000000e+00 | \n", + "\n", + " |
\n", + " | coding_region_change | \n", + "gene | \n", + "originating_species | \n", + "site | \n", + "bird_to_bird | \n", + "bird_to_human | \n", + "human_to_human | \n", + "site2 | \n", + "end_in_human | \n", + "p_value | \n", + "significance | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "M317V | \n", + "PB1 | \n", + "duck | \n", + "PB1 M317V | \n", + "22.0 | \n", + "0.0 | \n", + "0.0 | \n", + "317V | \n", + "0.0 | \n", + "0.253534 | \n", + "\n", + " |
1 | \n", + "R367K | \n", + "PA | \n", + "duck | \n", + "PA R367K | \n", + "16.0 | \n", + "2.0 | \n", + "1.0 | \n", + "367K | \n", + "3.0 | \n", + "0.192267 | \n", + "\n", + " |
2 | \n", + "K129E | \n", + "HA | \n", + "duck | \n", + "HA K129E | \n", + "1.0 | \n", + "0.0 | \n", + "0.0 | \n", + "129E | \n", + "0.0 | \n", + "1.000000 | \n", + "\n", + " |
3 | \n", + "A265T | \n", + "HA | \n", + "duck | \n", + "HA A265T | \n", + "5.0 | \n", + "0.0 | \n", + "0.0 | \n", + "265T | \n", + "0.0 | \n", + "1.000000 | \n", + "\n", + " |
4 | \n", + "A199V | \n", + "M1 | \n", + "duck | \n", + "M1 A199V | \n", + "1.0 | \n", + "0.0 | \n", + "0.0 | \n", + "199V | \n", + "0.0 | \n", + "1.000000 | \n", + "\n", + " |
\n", + " | site | \n", + "significance | \n", + "originating_species | \n", + "bird_to_bird | \n", + "end_in_human | \n", + "height | \n", + "variable | \n", + "
---|---|---|---|---|---|---|---|
5 | \n", + "PB2 H151P | \n", + "\n", + " | human | \n", + "2.0 | \n", + "0.0 | \n", + "2.0 | \n", + "human/bird to human | \n", + "
6 | \n", + "PB2 S532P | \n", + "\n", + " | human | \n", + "3.0 | \n", + "0.0 | \n", + "3.0 | \n", + "human/bird to human | \n", + "
7 | \n", + "PB2 N540S | \n", + "\n", + " | human | \n", + "2.0 | \n", + "0.0 | \n", + "2.0 | \n", + "human/bird to human | \n", + "
8 | \n", + "PB2 P579S | \n", + "\n", + " | human | \n", + "1.0 | \n", + "0.0 | \n", + "1.0 | \n", + "human/bird to human | \n", + "
9 | \n", + "PB2 E627K | \n", + "**** | \n", + "human | \n", + "15.0 | \n", + "36.0 | \n", + "51.0 | \n", + "human/bird to human | \n", + "
\n", + " | originating_species | \n", + "site | \n", + "significance | \n", + "variable | \n", + "value | \n", + "
---|---|---|---|---|---|
37 | \n", + "human | \n", + "HA A150V | \n", + "**** | \n", + "bird_to_bird | \n", + "1.0 | \n", + "
97 | \n", + "human | \n", + "HA A150V | \n", + "**** | \n", + "end_in_human | \n", + "8.0 | \n", + "
3 | \n", + "duck | \n", + "HA A265T | \n", + "\n", + " | bird_to_bird | \n", + "5.0 | \n", + "
63 | \n", + "duck | \n", + "HA A265T | \n", + "\n", + " | end_in_human | \n", + "0.0 | \n", + "
36 | \n", + "human | \n", + "HA E142G | \n", + "\n", + " | bird_to_bird | \n", + "3.0 | \n", + "
\n", + " | originating_species | \n", + "site | \n", + "significance | \n", + "variable | \n", + "value | \n", + "
---|---|---|---|---|---|
37 | \n", + "human | \n", + "HA A150V | \n", + "**** | \n", + "bird_to_bird | \n", + "1.0 | \n", + "
97 | \n", + "human | \n", + "HA A150V | \n", + "**** | \n", + "end_in_human | \n", + "8.0 | \n", + "
36 | \n", + "human | \n", + "HA E142G | \n", + "\n", + " | bird_to_bird | \n", + "3.0 | \n", + "
96 | \n", + "human | \n", + "HA E142G | \n", + "\n", + " | end_in_human | \n", + "1.0 | \n", + "
48 | \n", + "human | \n", + "HA E91G | \n", + "\n", + " | bird_to_bird | \n", + "1.0 | \n", + "
\n", + " | A/Cambodia/X0219301/2013 | \n", + "A/Cambodia/X1030304/2013 | \n", + "A/CAMBODIA/V0417301/2011 | \n", + "A/Cambodia/W0112303/2012 | \n", + "A/Cambodia/X0125302/2013 | \n", + "A/Cambodia/X0207301/2013 | \n", + "A/duck/Cambodia/381W11M4/2013 | \n", + "A/duck/Cambodia/PV027D1/2010 | \n", + "A/duck/Cambodia/083D1/2011 | \n", + "A/duck/Cambodia/Y0224301/2014 | \n", + "A/duck/Cambodia/Y0224304/2014 | \n", + "A/Cambodia/X0128304/2013 | \n", + "A/CAMBODIA/V0401301/2011 | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
H5 | \n", + "{'mean': 80.74651972157773, 'stdev': 24.927314... | \n", + "{'mean': 274.7527826596368, 'stdev': 132.97923... | \n", + "{'mean': 175.71997656707674, 'stdev': 78.69992... | \n", + "{'mean': 159.1923515981735, 'stdev': 71.591295... | \n", + "{'mean': 78.80205949656751, 'stdev': 35.208069... | \n", + "{'mean': 172.25190392501466, 'stdev': 69.36144... | \n", + "{'mean': 221.34212067955477, 'stdev': 55.99762... | \n", + "{'mean': 215.46276293348492, 'stdev': 68.71853... | \n", + "{'mean': 239.8465909090909, 'stdev': 76.957393... | \n", + "{'mean': 203.88810779144697, 'stdev': 62.73540... | \n", + "{'mean': 209.59122006841505, 'stdev': 75.35279... | \n", + "{'mean': 229.08911449520588, 'stdev': 97.76228... | \n", + "{'mean': 183.82122260668973, 'stdev': 134.9547... | \n", + "
MP | \n", + "{'mean': 307.4733727810651, 'stdev': 117.81183... | \n", + "{'mean': 323.50194931773876, 'stdev': 121.1072... | \n", + "{'mean': 306.2413793103448, 'stdev': 116.35117... | \n", + "{'mean': 302.68062317429406, 'stdev': 114.1490... | \n", + "{'mean': 337.6394088669951, 'stdev': 123.55711... | \n", + "{'mean': 312.7120470127326, 'stdev': 119.61968... | \n", + "{'mean': 253.07722772277228, 'stdev': 81.51758... | \n", + "{'mean': 258.6630963972736, 'stdev': 85.566267... | \n", + "{'mean': 276.6756487025948, 'stdev': 89.439868... | \n", + "{'mean': 270.1986234021632, 'stdev': 87.293095... | \n", + "{'mean': 305.05226824457594, 'stdev': 97.01337... | \n", + "{'mean': 282.0759493670886, 'stdev': 97.782808... | \n", + "{'mean': 303.6952288218111, 'stdev': 116.55080... | \n", + "
N1 | \n", + "{'mean': 315.2972582972583, 'stdev': 97.545729... | \n", + "{'mean': 297.7859237536657, 'stdev': 81.437855... | \n", + "{'mean': 302.92909356725147, 'stdev': 89.54709... | \n", + "{'mean': 310.45500359971203, 'stdev': 102.7331... | \n", + "{'mean': 318.04413892908826, 'stdev': 98.58065... | \n", + "{'mean': 317.6450184501845, 'stdev': 89.358307... | \n", + "{'mean': 209.87028985507246, 'stdev': 48.75882... | \n", + "{'mean': 217.60361010830326, 'stdev': 54.75955... | \n", + "{'mean': 272.92554744525546, 'stdev': 60.55202... | \n", + "{'mean': 267.42162554426704, 'stdev': 73.16024... | \n", + "{'mean': 238.35264301230993, 'stdev': 76.08532... | \n", + "{'mean': 296.6331403762663, 'stdev': 93.673694... | \n", + "{'mean': 304.2348703170029, 'stdev': 101.22469... | \n", + "
NP | \n", + "{'mean': 308.675884244373, 'stdev': 94.7443034... | \n", + "{'mean': 301.1545454545454, 'stdev': 94.136474... | \n", + "{'mean': 318.7283950617284, 'stdev': 94.964282... | \n", + "{'mean': 312.568284789644, 'stdev': 95.9284229... | \n", + "{'mean': 306.77433913604125, 'stdev': 92.64977... | \n", + "{'mean': 310.9020618556701, 'stdev': 90.840509... | \n", + "{'mean': 205.98704663212436, 'stdev': 56.00401... | \n", + "{'mean': 243.12597402597402, 'stdev': 63.65726... | \n", + "{'mean': 242.06878650227125, 'stdev': 60.65071... | \n", + "{'mean': 249.77792207792209, 'stdev': 67.52731... | \n", + "{'mean': 223.83387835186397, 'stdev': 56.01667... | \n", + "{'mean': 263.5327342747112, 'stdev': 100.27784... | \n", + "{'mean': 308.6030483764082, 'stdev': 95.701892... | \n", + "
NS | \n", + "{'mean': 260.1430303030303, 'stdev': 109.27621... | \n", + "{'mean': 310.85058823529414, 'stdev': 125.8542... | \n", + "{'mean': 272.6928487690504, 'stdev': 122.20650... | \n", + "{'mean': 264.26254375729286, 'stdev': 119.3157... | \n", + "{'mean': 303.02552204176334, 'stdev': 126.8074... | \n", + "{'mean': 248.42198581560282, 'stdev': 109.0105... | \n", + "{'mean': 233.52927669345578, 'stdev': 83.41295... | \n", + "{'mean': 232.1209677419355, 'stdev': 88.987695... | \n", + "{'mean': 268.2782909930716, 'stdev': 97.787760... | \n", + "{'mean': 263.0208333333333, 'stdev': 94.465659... | \n", + "{'mean': 302.46514285714284, 'stdev': 110.4690... | \n", + "{'mean': 286.9097142857143, 'stdev': 99.724861... | \n", + "{'mean': 266.86285714285714, 'stdev': 119.6300... | \n", + "
PA | \n", + "{'mean': 328.65105808194505, 'stdev': 85.05802... | \n", + "{'mean': 208.65268380694633, 'stdev': 52.70260... | \n", + "{'mean': 330.770130454341, 'stdev': 84.4117931... | \n", + "{'mean': 323.70480035890535, 'stdev': 85.07515... | \n", + "{'mean': 309.2011674898967, 'stdev': 76.660005... | \n", + "{'mean': 341.55127041742287, 'stdev': 79.83733... | \n", + "{'mean': 220.9851150202977, 'stdev': 47.570508... | \n", + "{'mean': 263.6078959174518, 'stdev': 63.613838... | \n", + "{'mean': 278.192118226601, 'stdev': 58.2095406... | \n", + "{'mean': 236.36572199730094, 'stdev': 56.76761... | \n", + "{'mean': 135.8745487364621, 'stdev': 52.391550... | \n", + "{'mean': 238.72637707120467, 'stdev': 75.40469... | \n", + "{'mean': 293.8260473588342, 'stdev': 69.629738... | \n", + "
PB1 | \n", + "{'mean': 287.5053487376979, 'stdev': 75.054478... | \n", + "{'mean': 218.33868808567604, 'stdev': 162.8266... | \n", + "{'mean': 310.97949594190516, 'stdev': 82.77597... | \n", + "{'mean': 300.9350704826997, 'stdev': 86.839423... | \n", + "{'mean': 281.822518263859, 'stdev': 72.5600107... | \n", + "{'mean': 310.0858869227449, 'stdev': 80.024440... | \n", + "{'mean': 251.62419562419564, 'stdev': 52.56900... | \n", + "{'mean': 278.75865014950875, 'stdev': 61.58203... | \n", + "{'mean': 296.67870967741936, 'stdev': 65.28027... | \n", + "{'mean': 262.45247311827956, 'stdev': 59.70722... | \n", + "{'mean': 161.17239896818572, 'stdev': 102.6129... | \n", + "NaN | \n", + "{'mean': 290.42844638949674, 'stdev': 74.95114... | \n", + "
PB2 | \n", + "{'mean': 276.1618150684931, 'stdev': 77.955021... | \n", + "{'mean': 194.39132302405497, 'stdev': 78.65829... | \n", + "{'mean': 280.38504273504276, 'stdev': 76.74753... | \n", + "{'mean': 258.17067927773, 'stdev': 76.08029499... | \n", + "{'mean': 227.18485237483955, 'stdev': 80.19810... | \n", + "{'mean': 303.08196721311475, 'stdev': 79.82138... | \n", + "{'mean': 201.0807347287484, 'stdev': 51.455954... | \n", + "{'mean': 251.5702691157625, 'stdev': 54.405755... | \n", + "{'mean': 270.61512174284496, 'stdev': 58.90614... | \n", + "{'mean': 235.34821811936453, 'stdev': 61.16001... | \n", + "{'mean': 138.1956241956242, 'stdev': 50.065291... | \n", + "{'mean': 245.0367364374199, 'stdev': 65.900698... | \n", + "{'mean': 225.7982905982906, 'stdev': 80.682941... | \n", + "
\n", + " | index | \n", + "H5 | \n", + "MP | \n", + "N1 | \n", + "NP | \n", + "NS | \n", + "PA | \n", + "PB1 | \n", + "PB2 | \n", + "
---|---|---|---|---|---|---|---|---|---|
0 | \n", + "1 | \n", + "0.307692 | \n", + "0.615385 | \n", + "0.615385 | \n", + "3.461538 | \n", + "1.230769 | \n", + "1.000000 | \n", + "0.727273 | \n", + "0.692308 | \n", + "
1 | \n", + "10 | \n", + "11.230769 | \n", + "17.615385 | \n", + "15.076923 | \n", + "17.769231 | \n", + "16.538462 | \n", + "17.230769 | \n", + "12.500000 | \n", + "12.307692 | \n", + "
2 | \n", + "100 | \n", + "93.307692 | \n", + "154.384615 | \n", + "152.692308 | \n", + "136.384615 | \n", + "151.000000 | \n", + "132.538462 | \n", + "134.750000 | \n", + "113.769231 | \n", + "
3 | \n", + "1000 | \n", + "203.076923 | \n", + "96.923077 | \n", + "310.692308 | \n", + "322.615385 | \n", + "NaN | \n", + "277.923077 | \n", + "290.666667 | \n", + "223.000000 | \n", + "
4 | \n", + "1001 | \n", + "203.461538 | \n", + "91.307692 | \n", + "311.769231 | \n", + "323.000000 | \n", + "NaN | \n", + "278.000000 | \n", + "290.000000 | \n", + "222.769231 | \n", + "
\n", + " | site | \n", + "gene | \n", + "mean | \n", + "
---|---|---|---|
0 | \n", + "1 | \n", + "H5 | \n", + "0.307692 | \n", + "
1 | \n", + "10 | \n", + "H5 | \n", + "11.230769 | \n", + "
2 | \n", + "100 | \n", + "H5 | \n", + "93.307692 | \n", + "
3 | \n", + "1000 | \n", + "H5 | \n", + "203.076923 | \n", + "
4 | \n", + "1001 | \n", + "H5 | \n", + "203.461538 | \n", + "
\n", + " | site | \n", + "gene | \n", + "mean | \n", + "stdev | \n", + "upper | \n", + "lower | \n", + "
---|---|---|---|---|---|---|
0 | \n", + "1 | \n", + "H5 | \n", + "0.307692 | \n", + "0.480384 | \n", + "0.788077 | \n", + "-0.172692 | \n", + "
1 | \n", + "10 | \n", + "H5 | \n", + "11.230769 | \n", + "4.867474 | \n", + "16.098244 | \n", + "6.363295 | \n", + "
2 | \n", + "100 | \n", + "H5 | \n", + "93.307692 | \n", + "34.313225 | \n", + "127.620918 | \n", + "58.994467 | \n", + "
3 | \n", + "1000 | \n", + "H5 | \n", + "203.076923 | \n", + "83.395105 | \n", + "286.472028 | \n", + "119.681818 | \n", + "
4 | \n", + "1001 | \n", + "H5 | \n", + "203.461538 | \n", + "83.714411 | \n", + "287.175949 | \n", + "119.747128 | \n", + "