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Analysis of comparison.txt
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Analysis of comparison.txt
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NC_014219, CP002394
Global Alignment
[16S, 23S, 5S]
[16S, 23S, 5S]
[16S, 23S, 5S]
[16S, 23S, 5S]
Val_GUC
Val_GUC
Sec_UGA
Sec_UGA
Ala_GCC
Ala_GCC
Arg_CGA
Arg_CGA
[Met_AUG, Met_AUG, Ser_UCA]
[Met_AUG, Met_AUG, Ser_UCA]
[16S, Ile_AUC, Ala_GCA, 23S, 5S, Val_GUA, Thr_ACA, Lys_AAA, Leu_CUG, Gly_GGC, Leu_UUA, Arg_CGU, Pro_CCA, Ala_GCA, 16S, 23S, 5S]
[16S, Ile_AUC, Ala_GCA, 23S, 5S, Val_GUA, Thr_ACA, Lys_AAA, Leu_CUA, Gly_GGC, Leu_UUA, Arg_CGU, Pro_CCA, Ala_GCA, 16S, 23S, 5S]
['Thr_ACA', 'Phe_UUC', 'Asp_GAC', 'Met_AUG', 'Glu_GAA', 'Lys_AAA']
['Thr_ACA', 'Phe_UUC', 'Asp_GAC', 'Met_AUG', 'Glu_GAA' ] Lys was included
['16S', '23S', '5S', 'Ala_GCA', 'Met_AUG', 'Ser_UCA', 'Asp_GAC', 'Tyr_UAC', 'Trp_UGG', 'His_CAC', 'Gln_CAA', 'Gly_GGC', 'Arg_CGU', 'Gly_GGA', 'Ile_AUC', 'Asn_AAC', 'Glu_GAA', 'Lys_AAA']
['16S', '23S', '5S', 'Ala_GCA', 'Met_AUG', 'Ser_UCA', 'Asp_GAC', 'Tyr_UAC', 'Trp_UGG', 'His_CAC', 'Gln_CAA', 'Gly_GGC', 'Arg_CGU', 'Gly_GGA', 'Ile_AUC', 'Asn_AAC', 'Ser_AGC', 'Glu_GAA', 'Lys_AAA'] Ser was included
[Asn_AAC, Ser_AGC, Glu_GAA, Val_GUA, Asp_GAC, Leu_CUA, Leu_CUC, Pro_CCA, Gly_GGA, 16S, 23S, 5S]
[Asn_AAC, Ser_AGC, Glu_GAA, Val_GUA, Asp_GAC, Leu_CUA, Leu_CUC, Arg_CGU, Pro_CCA, Gly_GGA, Ile_AUC, 16S, 23S, 5S] Both Ile and Arg included
['16S', '23S', '5S', 'Asn_AAC', 'Ser_UCC', 'Glu_GAA', 'Val_GUA', 'Met_AUG', 'Asp_GAC', 'Phe_UUC', 'Thr_ACA', 'Tyr_UAC', 'His_CAC', 'Gln_CAA', 'Gly_GGC', 'Cys_UGC', 'Leu_UUG']
['16S', '23S', '5S', 'Asn_AAC', 'Ser_UCC', 'Glu_GAA', 'Val_GUA', 'Met_AUG', 'Asp_GAC', 'Phe_UUC', 'Thr_ACA', 'Tyr_UAC', 'Trp_UGG', 'His_CAC', 'Gln_CAA', 'Gly_GGC', 'Cys_UGC', 'Leu_UUA', 'Leu_UUG'] Gly and Leu both included
Local Alignment
[5S, Asn_AAC, Thr_ACC, Glu_GAA, Gln_CAA ]
[ Asn_AAC, Asn_AAC, Asn_AAC, Thr_ACC, Glu_GAA, Gln_CAA, Lys_AAA, Ala_GCA] 5S 2xAsn Lys, Gln all included
Extras(Not mapped by global or local alignment):
NC_014219
Arg_AGG (Lost)
Arg_AGA (Lost)
CP002394
Asn_AAC (Duplicate)
Gly_GGA (Duplicate)
Gln_CAA (Duplicate)
[16S, 23S, 5S] (Duplicate)
Sec_UGA (Duplicate)
[5S, 23S, 16S] (Duplicate)
[5S, 23S, 16S] (Duplicate)
Trp_NNN (Lost)
[Arg_AGA, Gly_GGA] (Lost)
Results Duplications:
4 for size 1
3 for size 3
Results Deletions:
9 for size 1
2 for size 2
Bugs fixed:
For self global alignment map only with marked operons
Checks if singleton exists in operon has been fixed
Question:
Distribution graphs are including counts for genes within operons?