Add test case for MNPs with END tag #13

chapmanb · Apr 10, 2014 · 7f66cc1 · 7f66cc1
1 parent 69eb79a
commit 7f66cc1
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/test/data/digrade/NA12878-cmp-r1.vcf b/test/data/digrade/NA12878-cmp-r1.vcf
@@ -166,4 +166,5 @@
 22	14258	.	C	T	.	.	ABCI5=0.707;ABCI50=0.756;ABCI95=0.800;AC=1;AF=0.500;AN=2;BaseQRankSum=-5.968;CFILTERS=None;DP=227;Entropy=3.57;FS=0.000;GC=50.50;HRun=2;HaplotypeScore=0.0000;MFE=-0.44;MPGHetRef=113.16;MPGHomRef=-1.132e+02;MPGHomVar=-5.395e+02;MPGLikHetRef=68.33;MPGLikHomRef=181.49;MPGLikHomVar=607.82;MQ=1.19;MQ0=0;MQRankSum=0.348;NBQ=34.82;ReadMeanLen=99.2;ReadMeanPos=0.571;ReadPosEndDist=22.8;ReadPosRankSum=-0.604;set=varscan	GT:AD:DP:PVAL	0/1:173,54:223:3.3114E-18
 22	14364	.	G	T	.	.	ABCI5=0.635;ABCI50=0.720;ABCI95=0.796;AC=1;AF=0.500;AN=2;BaseQRankSum=-5.134;CFILTERS=None;DP=81;Entropy=3.29;FS=0.000;GC=54.46;HRun=1;HaplotypeScore=0.0000;MFE=-0.99;MPGHetRef=48.13;MPGHomRef=-4.813e+01;MPGHomVar=-1.872e+02;MPGLikHetRef=24.38;MPGLikHomRef=72.51;MPGLikHomVar=211.61;MQ=1.71;MQ0=0;MQRankSum=-0.929;NBQ=34.07;ReadMeanLen=99.0;ReadMeanPos=0.516;ReadPosEndDist=23.9;ReadPosRankSum=-0.536;set=varscan	GT:AD:DP:PVAL	0/1:59,22:81:4.5762E-8
 22	14929	.	GGCCCACA	G	100.813537528125	PASS	SAMPLE=NA12878;DP=48;END=14936;VP=6;AF=0.125;BIAS=2:0;REFBIAS=25:17;VARBIAS=6:0;PMEAN=29.3;PSTD=12.97;QUAL=39;QSTD=2.3;SBF=0.0766397001445299;ODDRATIO=0	GT:DP	0/1:48
-22	14937	.	GCCCACAG	G	89.6981987750241	PASS	SAMPLE=NA12878;DP=49;END=14944;VP=6;AF=0.12245;BIAS=2:0;REFBIAS=26:16;VARBIAS=6:0;PMEAN=40.7;PSTD=5.75;QUAL=34.7;QSTD=3.5;SBF=0.159450278009751;ODDRATIO=0	GT:DP	0/1:49
+22	14937	.	GCCCACAG	G	89.6981987750241	PASS	SAMPLE=NA12878;DP=49;END=14944;VP=6;AF=0.12245;BIAS=2:0;REFBIAS=26:16;VARBIAS=6:0;PMEAN=40.7;PSTD=5.75;QUAL=34.7;QSTD=3.5;SBF=0.159450278009751;ODDRATIO=0	GT:DP	0/1:49
+22	14948	.	GA	CC	20.0	PASS	END=14949	GT:DP	0/1:10