diff test-data/input1.vcf @ 1:52a9e19ae588 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/input1.vcf	Mon Feb 20 19:56:50 2023 +0000
@@ -0,0 +1,112 @@
+Chrom	Position	Ref	Cons	Reads1	Reads2	VarFreq	Strands1	Strands2	Qual1	Qual2	Pvalue	MapQual1	MapQual2	Reads1Plus	Reads1Minus	Reads2Plus	Reads2Minus	VarAllele
+chromosome	6848	C	T	0	46	100%	0	2	0	18	2.434301551680221E-27	0	1	0	0	14	32	T
+chromosome	28975	G	A	0	19	100%	0	2	0	16	2.829233375250701E-11	0	1	0	0	16	3	A
+chromosome	64632	T	C	1	20	95.24%	1	2	17	17	4.087260223157705E-11	1	1	1	0	9	11	C
+chromosome	73738	T	C	0	15	100%	0	2	0	16	6.446725037893782E-9	0	1	0	0	12	3	C
+chromosome	122896	G	A	0	29	100%	0	2	0	21	3.325875998788469E-17	0	1	0	0	3	26	A
+chromosome	171823	C	T	1	20	90.91%	1	2	15	19	4.087260223157705E-11	1	1	1	0	17	3	T
+chromosome	182106	C	T	0	15	100%	0	2	0	16	6.446725037893782E-9	0	1	0	0	6	9	T
+chromosome	200731	C	T	2	47	95.92%	1	2	22	20	5.0043936105136293E-26	1	1	2	0	21	26	T
+chromosome	240050	T	C	0	30	93.75%	0	2	0	19	8.455616946072207E-18	0	1	0	0	14	16	C
+chromosome	243867	C	T	0	33	100%	0	2	0	19	1.3851512057218843E-19	0	1	0	0	24	9	T
+chromosome	245190	C	T	0	42	93.33%	0	2	0	18	5.9562436962098315E-25	0	1	0	0	24	18	T
+chromosome	274236	C	A	0	59	100%	0	2	0	20	4.105646544903784E-35	0	1	0	0	21	38	A
+chromosome	317131	G	T	1	7	87.5%	1	1	21	18	6.993006993006951E-4	1	1	1	0	7	0	T
+chromosome	318187	C	T	0	39	100%	0	2	0	21	3.6741722220670473E-23	0	1	0	0	17	22	T
+chromosome	337241	T	C	0	39	95.12%	0	2	0	20	3.6741722220670473E-23	0	1	0	0	19	20	C
+chromosome	359536	G	A	0	18	100%	0	2	0	16	1.1019119461502356E-10	0	1	0	0	5	13	A
+chromosome	387637	G	A	0	27	100%	0	2	0	19	5.136266628670978E-16	0	1	0	0	15	12	A
+chromosome	433277	G	T	0	19	100%	0	2	0	19	2.829233375250701E-11	0	1	0	0	10	9	T
+chromosome	513052	C	T	0	16	100%	0	2	0	18	1.6636709775210046E-9	0	1	0	0	2	14	T
+chromosome	521963	A	G	1	57	91.94%	1	2	19	21	9.60721291507612E-33	1	1	1	0	26	31	G
+chromosome	571199	G	A	3	17	85%	1	2	16	21	1.2847621301458368E-8	1	1	0	3	7	10	A
+chromosome	644625	T	C	1	21	95.45%	1	2	22	18	1.093104478286346E-11	1	1	0	1	10	11	C
+chromosome	665308	T	C	1	16	94.12%	1	2	17	17	7.713383623051864E-9	1	1	1	0	7	9	C
+chromosome	692932	C	T	1	20	95.24%	1	2	19	17	4.087260223157705E-11	1	1	0	1	5	15	T
+chromosome	702761	G	C	0	20	95.24%	0	2	0	18	7.254444551924877E-12	0	1	0	0	13	7	C
+chromosome	706839	C	T	0	7	100%	0	2	0	20	2.9137529137529E-4	0	1	0	0	4	3	T
+chromosome	732173	A	T	0	20	100%	0	2	0	18	7.254444551924877E-12	0	1	0	0	10	10	T
+chromosome	765499	A	C	0	27	100%	0	2	0	18	5.136266628670978E-16	0	1	0	0	24	3	C
+chromosome	789298	G	A	0	18	100%	0	2	0	16	1.1019119461502356E-10	0	1	0	0	9	9	A
+chromosome	814684	T	G	4	22	81.48%	1	2	18	17	5.52610926578708E-11	1	1	4	0	11	11	G
+chromosome	852207	T	G	0	13	100%	0	2	0	17	9.614829913658729E-8	0	1	0	0	8	5	G
+chromosome	867050	A	C	0	14	93.33%	0	2	0	18	2.4927336813189342E-8	0	1	0	0	9	5	C
+chromosome	1023150	A	G	0	27	100%	0	2	0	17	5.136266628670978E-16	0	1	0	0	11	16	G
+chromosome	1120096	C	T	0	55	100%	0	2	0	20	1.0149479655659631E-32	0	1	0	0	19	36	T
+chromosome	1131906	T	C	0	27	100%	0	2	0	17	5.136266628670978E-16	0	1	0	0	11	16	C
+chromosome	1181950	A	G	1	36	97.3%	1	2	16	18	2.176240469993604E-20	1	1	0	1	21	15	G
+chromosome	1184347	G	A	1	18	90%	1	2	15	21	5.658466750501197E-10	1	1	0	1	5	13	A
+chromosome	1223198	C	T	0	27	100%	0	2	0	20	5.136266628670978E-16	0	1	0	0	6	21	T
+chromosome	1270555	G	T	0	15	93.75%	0	2	0	18	6.446725037893782E-9	0	1	0	0	4	11	T
+chromosome	1306861	C	T	0	31	100%	0	2	0	19	2.148558404330002E-18	0	1	0	0	17	14	T
+chromosome	1377487	G	A	1	12	92.31%	1	2	18	20	1.3460761879122365E-6	1	1	0	1	8	4	A
+chromosome	1385721	G	A	0	38	100%	0	2	0	19	1.4508269799957698E-22	0	1	0	0	18	20	A
+chromosome	1406212	C	T	0	28	100%	0	2	0	19	1.3074133236616653E-16	0	1	0	0	15	13	T
+chromosome	1423420	A	G	0	16	94.12%	0	2	0	18	1.6636709775210046E-9	0	1	0	0	1	15	G
+chromosome	1481095	C	T	0	9	100%	0	1	0	22	2.056766762649123E-5	0	1	0	0	9	0	T
+chromosome	1481116	C	T	0	12	100%	0	1	0	18	3.6980115052534125E-7	0	1	0	0	12	0	T
+chromosome	1592398	C	A	0	26	100%	0	2	0	20	2.016460231996677E-15	0	1	0	0	1	25	A
+chromosome	1621512	C	A	0	27	100%	0	2	0	19	5.136266628670978E-16	0	1	0	0	4	23	A
+chromosome	1631941	G	T	0	24	100%	0	2	0	18	3.101005612159882E-14	0	1	0	0	14	10	T
+chromosome	1728049	G	A	1	17	94.44%	1	2	15	17	2.0936326976854063E-9	1	1	1	0	8	9	A
+chromosome	1774177	C	T	0	27	100%	0	2	0	17	5.136266628670978E-16	0	1	0	0	16	11	T
+chromosome	1781207	C	T	0	6	85.71%	0	2	0	22	0.0010822510822510842	0	1	0	0	3	3	T
+chromosome	1797708	T	C	0	21	100%	0	2	0	19	1.8578455559807287E-12	0	1	0	0	8	13	C
+chromosome	1798769	G	T	1	22	95.65%	1	2	22	18	2.914945275430307E-12	1	1	0	1	9	13	T
+chromosome	1867996	T	C	0	15	100%	0	2	0	17	6.446725037893782E-9	0	1	0	0	7	8	C
+chromosome	1982986	C	T	0	26	100%	0	2	0	20	2.016460231996677E-15	0	1	0	0	15	11	T
+chromosome	2067935	G	A	0	17	100%	0	2	0	19	4.2852131239177147E-10	0	1	0	0	6	11	A
+chromosome	2133680	G	T	0	24	100%	0	2	0	18	3.101005612159882E-14	0	1	0	0	13	11	T
+chromosome	2179870	T	C	2	12	85.71%	1	2	18	19	2.9912804175827393E-6	1	1	2	0	5	7	C
+chromosome	2280814	A	C	1	7	87.5%	1	2	15	18	6.993006993006951E-4	1	1	1	0	6	1	C
+chromosome	2299647	A	G	0	8	100%	0	2	0	20	7.770007770007759E-5	0	1	0	0	4	4	G
+chromosome	2371243	T	C	0	17	100%	0	2	0	17	4.2852131239177147E-10	0	1	0	0	9	8	C
+chromosome	2423657	A	G	1	19	90.48%	1	2	16	18	1.5234333559041912E-10	1	1	1	0	6	13	G
+chromosome	2694862	G	A	2	15	88.24%	1	1	16	19	7.327714441899113E-8	1	1	0	2	15	0	A
+chromosome	2749671	A	G	0	27	96.43%	0	2	0	20	5.136266628670978E-16	0	1	0	0	8	19	G
+chromosome	2834318	G	A	0	20	100%	0	2	0	18	7.254444551924877E-12	0	1	0	0	4	16	A
+chromosome	2956135	G	A	0	15	100%	0	2	0	18	6.446725037893782E-9	0	1	0	0	8	7	A
+chromosome	2989856	G	A	0	28	100%	0	2	0	23	1.3074133236616653E-16	0	1	0	0	12	16	A
+chromosome	3038888	T	C	2	21	87.5%	2	2	15	18	3.643681594287794E-11	1	1	1	1	9	12	C
+chromosome	3163858	A	G	0	21	100%	0	2	0	17	1.8578455559807287E-12	0	1	0	0	8	13	G
+chromosome	3306423	C	T	0	19	100%	0	2	0	18	2.829233375250701E-11	0	1	0	0	12	7	T
+chromosome	3364887	G	A	0	15	100%	0	2	0	20	6.446725037893782E-9	0	1	0	0	1	14	A
+chromosome	3382079	C	T	0	17	100%	0	2	0	17	4.2852131239177147E-10	0	1	0	0	6	11	T
+chromosome	3457902	C	T	2	12	80%	1	1	18	22	2.9912804175827393E-6	1	1	2	0	12	0	T
+chromosome	3460779	T	C	0	24	100%	0	2	0	19	3.101005612159882E-14	0	1	0	0	14	10	C
+chromosome	3568849	A	G	1	27	93.1%	1	2	18	17	3.7914986386187776E-15	1	1	0	1	17	10	G
+chromosome	3696168	C	T	0	27	100%	0	2	0	18	5.136266628670978E-16	0	1	0	0	14	13	T
+chromosome	3712048	T	C	0	28	100%	0	2	0	20	1.3074133236616653E-16	0	1	0	0	15	13	C
+chromosome	3739850	A	G	0	19	100%	0	2	0	17	2.829233375250701E-11	0	1	0	0	6	13	G
+chromosome	3758015	A	G	0	29	100%	0	2	0	19	3.325875998788469E-17	0	1	0	0	13	16	G
+chromosome	3841816	G	A	0	20	100%	0	2	0	19	7.254444551924877E-12	0	1	0	0	11	9	A
+chromosome	4035203	T	C	0	19	100%	0	2	0	17	2.829233375250701E-11	0	1	0	0	10	9	C
+chromosome	4145299	C	T	1	27	96.43%	1	2	17	21	3.7914986386187776E-15	1	1	0	1	15	12	T
+chromosome	4147376	C	T	1	25	96.15%	1	2	15	19	5.4444426263911445E-14	1	1	1	0	19	6	T
+chromosome	4158968	C	T	0	25	100%	0	2	0	20	7.910728602448565E-15	0	1	0	0	7	18	T
+chromosome	4212929	G	T	0	17	100%	0	2	0	17	4.2852131239177147E-10	0	1	0	0	16	1	T
+chromosome	4232753	C	T	0	29	100%	0	2	0	16	3.325875998788469E-17	0	1	0	0	17	12	T
+chromosome	4345557	T	A	1	23	95.83%	1	2	15	18	7.752514030399528E-13	1	1	1	0	21	2	A
+chromosome	4456896	G	A	0	17	100%	0	2	0	18	4.2852131239177147E-10	0	1	0	0	12	5	A
+chromosome	4501001	G	A	0	34	100%	0	2	0	19	3.5145627607868225E-20	0	1	0	0	12	22	A
+chromosome	4519053	A	G	2	24	92.31%	2	2	15	19	7.622219676947252E-13	1	1	1	1	8	16	G
+chromosome	4519433	C	A	0	16	100%	0	2	0	17	1.6636709775210046E-9	0	1	0	0	5	11	A
+chromosome	4698084	T	C	4	41	91.11%	2	2	18	20	2.040655516360998E-21	1	1	3	1	15	26	C
+chromosome	4867375	G	A	0	37	97.37%	0	1	0	22	5.726948605246429E-22	0	1	0	0	0	37	A
+chromosome	4906423	C	A	0	5	83.33%	0	1	0	17	0.003968253968253951	0	1	0	0	5	0	A
+chromosome	4929312	T	G	1	18	94.74%	1	2	23	17	5.658466750501197E-10	1	1	0	1	9	9	G
+chromosome	4951610	G	A	0	49	98%	0	2	0	19	3.925014596481366E-29	0	1	0	0	19	30	A
+chromosome	5040523	C	T	3	12	80%	1	2	17	19	5.2605276309212935E-6	1	1	3	0	9	3	T
+chromosome	5077771	G	A	0	30	96.77%	0	2	0	20	8.455616946072207E-18	0	1	0	0	19	11	A
+chromosome	5140491	G	A	0	26	100%	0	2	0	16	2.016460231996677E-15	0	1	0	0	19	7	A
+chromosome	5157810	G	A	0	17	100%	0	2	0	17	4.2852131239177147E-10	0	1	0	0	10	7	A
+pXO1	7452	C	T	1	14	87.5%	1	2	15	16	1.0314760060630275E-7	1	1	1	0	9	5	T
+pXO1	28077	G	A	3	13	81.25%	1	2	17	21	1.6120971772178452E-6	1	1	0	3	3	10	A
+pXO1	31308	A	C	1	6	85.71%	1	2	16	18	0.0023310023310023167	1	1	1	0	4	2	C
+pXO1	55873	A	T	0	34	100%	0	1	0	22	3.5145627607868225E-20	0	1	0	0	0	34	T
+pXO1	55874	A	T	0	40	100%	0	2	0	21	9.301701828018192E-24	0	1	0	0	1	39	T
+pXO1	77518	A	G	0	23	82.14%	0	2	0	18	1.214560531429256E-13	0	1	0	0	8	15	G
+pXO1	141921	T	G	1	20	95.24%	1	2	17	17	4.087260223157705E-11	1	1	1	0	7	13	G
+pXO1	141922	T	A	1	35	94.59%	1	2	21	19	8.361344963659992E-20	1	1	1	0	10	25	A
+pXO1	141923	T	A	1	52	96.3%	1	2	15	22	8.6089731799244E-30	1	1	1	0	18	34	A
+pXO1	150892	C	A	0	87	100%	0	2	0	19	6.914158005458386E-52	0	1	0	0	24	63	A