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Test files v1
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raphaelleman committed Mar 1, 2019
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208 changes: 208 additions & 0 deletions testCrypt.txt
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gene varID
NF1 NM_000267:c.1000del
NF1 NM_000267:c.1007_1008delinsAA
NF1 NM_000267:c.1007G>A
NF1 NM_000267:c.1008G>A
NF1 NM_000267:c.1016del
NF1 NM_000267:c.1018_1031del
NF1 NM_000267:c.1019_1020del
NF1 NM_000267:c.1020dup
NF1 NM_000267:c.1021_1022del
NF1 NM_000267:c.1021_1031del
NF1 NM_000267:c.1022dup
NF1 NM_000267:c.1039C>T
NF1 NM_000267:c.1049dup
NF1 NM_000267:c.1061del
NF1 NM_000267:c.1062+1G>A
NF1 NM_000267:c.1062+3A>G
NF1 NM_000267:c.1062G>A
NF1 NM_000267:c.1063-13G>A
NF1 NM_000267:c.1063-14T>A
NF1 NM_000267:c.1063-1G>T
NF1 NM_000267:c.1063-2A>G
NF1 NM_000267:c.1063-2A>T
NF1 NM_000267:c.1093_1094del
NF1 NM_000267:c.1094C>G
NF1 NM_000267:c.1105C>T
NF1 NM_000267:c.1132_1133dup
NF1 NM_000267:c.1133_1136del
NF1 NM_000267:c.1139_1142delinsAAAA
NF1 NM_000267:c.1153del
NF1 NM_000267:c.1185_1185+2del
NF1 NM_000267:c.1185+1G>A
NF1 NM_000267:c.1185+1G>C
NF1 NM_000267:c.1185+1G>T
NF1 NM_000267:c.1185+2_1185+3delinsG
NF1 NM_000267:c.1185G>A
NF1 NM_000267:c.1186-1del
NF1 NM_000267:c.1186-2A>T
NF1 NM_000267:c.1198C>T
NF1 NM_000267:c.1202del
NF1 NM_000267:c.1212del
NF1 NM_000267:c.1226_1227del
NF1 NM_000267:c.1235A>G
NF1 NM_000267:c.1241T>G
NF1 NM_000267:c.1246C>T
NF1 NM_000267:c.1260+1544A>G
NF1 NM_000267:c.1260+1604A>G
NF1 NM_000267:c.1260+1G>A
NF1 NM_000267:c.1260+2dup
NF1 NM_000267:c.1260+3A>T
NF1 NM_000267:c.1260+4A>T
NF1 NM_000267:c.1260+5G>A
NF1 NM_000267:c.1260+5G>C
NF1 NM_000267:c.1260G>A
NF1 NM_000267:c.1261-1G>A
NF1 NM_000267:c.1261-2A>C
NF1 NM_000267:c.1261-2A>G
NF1 NM_000267:c.1274G>A
NF1 NM_000267:c.1275G>A
NF1 NM_000267:c.1278G>A
NF1 NM_000267:c.127del
NF1 NM_000267:c.1299T>A
NF1 NM_000267:c.1301del
NF1 NM_000267:c.1302T>A
NF1 NM_000267:c.1318C>T
NF1 NM_000267:c.1329del
NF1 NM_000267:c.132del
NF1 NM_000267:c.134A>G
NF1 NM_000267:c.1360del
NF1 NM_000267:c.1378A>G
NF1 NM_000267:c.1381C>T
NF1 NM_000267:c.1392+1G>T
NF1 NM_000267:c.1393-2A>G
NF1 NM_000267:c.1393-591A>G
NF1 NM_000267:c.1393-592A>G
NF1 NM_000267:c.1393-7_1393-1delinsC
NF1 NM_000267:c.1393-9T>A
NF1 NM_000267:c.1399dup
NF1 NM_000267:c.1411A>T
NF1 NM_000267:c.1414del
NF1 NM_000267:c.1460_1461delinsT
NF1 NM_000267:c.1465_1466delinsC
NF1 NM_000267:c.1465dup
NF1 NM_000267:c.1466A>G
NF1 NM_000267:c.1467_1468dup
NF1 NM_000267:c.147C>G
NF1 NM_000267:c.147del
NF1 NM_000267:c.1527+1159C>T
NF1 NM_000267:c.1527+1G>A
NF1 NM_000267:c.1527+1G>C
NF1 NM_000267:c.1527+1G>T
NF1 NM_000267:c.1527+2dup
NF1 NM_000267:c.1527+4_1527+7del
NF1 NM_000267:c.1527+5_1527+6delinsA
NF1 NM_000267:c.1527+5G>A
NF1 NM_000267:c.1528-14_1546del
NF1 NM_000267:c.1541_1542del
NF1 NM_000267:c.1541del
NF1 NM_000267:c.1570G>T
NF1 NM_000267:c.1591_1602delinsA
NF1 NM_000267:c.1592_1595dup
NF1 NM_000267:c.1607C>A
NF1 NM_000267:c.1639G>T
NF1 NM_000267:c.1641+1G>A
NF1 NM_000267:c.1641+2T>A
NF1 NM_000267:c.1642-10A>G
NF1 NM_000267:c.1642-1G>C
NF1 NM_000267:c.1642-2A>G
NF1 NM_000267:c.1642-449A>G
NF1 NM_000267:c.1642-5T>G
NF1 NM_000267:c.1649T>C
NF1 NM_000267:c.1651del
NF1 NM_000267:c.1655T>G
NF1 NM_000267:c.1658A>G
NF1 NM_000267:c.1663_1666del
NF1 NM_000267:c.1665dup
NF1 NM_000267:c.1676T>A
NF1 NM_000267:c.1679del
NF1 NM_000267:c.1708del
NF1 NM_000267:c.1720A>C
NF1 NM_000267:c.1721+1G>A
NF1 NM_000267:c.1721+1G>C
NF1 NM_000267:c.1721+1G>T
NF1 NM_000267:c.1721+2T>C
NF1 NM_000267:c.1721+3A>G
NF1 NM_000267:c.1721+537T>G
NF1 NM_000267:c.1721+542A>G
NF1 NM_000267:c.1721G>A
NF1 NM_000267:c.1722-2A>G
NF1 NM_000267:c.1722-3C>G
NF1 NM_000267:c.1728_1729del
NF1 NM_000267:c.174_177del
NF1 NM_000267:c.1743delinsCA
NF1 NM_000267:c.1748A>G
NF1 NM_000267:c.1755_1756del
NF1 NM_000267:c.1756_1759del
NF1 NM_000267:c.1756del
NF1 NM_000267:c.1758_1759del
NF1 NM_000267:c.1758del
NF1 NM_000267:c.1772_1781del
NF1 NM_000267:c.1783_1784del
NF1 NM_000267:c.1783G>T
NF1 NM_000267:c.179_181del
NF1 NM_000267:c.1797G>A
NF1 NM_000267:c.1809del
NF1 NM_000267:c.1811T>A
NF1 NM_000267:c.1837_1841del
NF1 NM_000267:c.1837_1845+17del
NF1 NM_000267:c.1838_1841del
NF1 NM_000267:c.1842_1845+1del
NF1 NM_000267:c.1845+1G>T
NF1 NM_000267:c.1845+2T>A
NF1 NM_000267:c.1845+2T>C
NF1 NM_000267:c.1845G>T
NF1 NM_000267:c.1846C>T
NF1 NM_000267:c.1849del
NF1 NM_000267:c.1854_1857del
NF1 NM_000267:c.1882dup
NF1 NM_000267:c.1885G>A
NF1 NM_000267:c.1888del
NF1 NM_000267:c.1889G>A
NF1 NM_000267:c.1896T>A
NF1 NM_000267:c.1914_1917dup
NF1 NM_000267:c.1933A>G
NF1 NM_000267:c.1945G>T
NF1 NM_000267:c.1A>G
NF1 NM_000267:c.2002-19_2005del
NF1 NM_000267:c.2013_2014delinsC
NF1 NM_000267:c.2027del
NF1 NM_000267:c.2031_2093del
NF1 NM_000267:c.2033_2034delinsC
NF1 NM_000267:c.2033del
NF1 NM_000267:c.2033dup
NF1 NM_000267:c.2038del
NF1 NM_000267:c.204+1G>A
NF1 NM_000267:c.204+1G>T
NF1 NM_000267:c.2041C>T
NF1 NM_000267:c.2050C>T
NF1 NM_000267:c.205-1G>C
NF1 NM_000267:c.205-2A>G
NF1 NM_000267:c.2072_2076dup
NF1 NM_000267:c.2072T>G
NF1 NM_000267:c.2077_2078del
NF1 NM_000267:c.2084T>G
NF1 NM_000267:c.2087G>A
NF1 NM_000267:c.2131del
NF1 NM_000267:c.2140_2150del
NF1 NM_000267:c.2172dup
NF1 NM_000267:c.2173G>T
NF1 NM_000267:c.2205_2206dup
NF1 NM_000267:c.2246C>G
NF1 NM_000267:c.2251+1G>A
NF1 NM_000267:c.2251+2T>C
NF1 NM_000267:c.2251+2T>G
NF1 NM_000267:c.2251G>A
NF1 NM_000267:c.2252-2A>C
NF1 NM_000267:c.2252-30_2252-6delinsT
NF1 NM_000267:c.2252-3T>G
NF1 NM_000267:c.2256_2259dup
NF1 NM_000267:c.2266C>T
NF1 NM_000267:c.2269A>T
NF1 NM_000267:c.2271_2272del
NF1 NM_000267:c.2272del
NF1 NM_000267:c.2288T>C
NF1 NM_000267:c.2303_2304del
NF1 NM_000267:c.2304_2308del
NF1 NM_000267:c.2310_2314del
NF1 NM_000267:c.232_233del
23 changes: 23 additions & 0 deletions testVar.vcf
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##fileformat=VCFv4.0
##fileDate=20090805
##source=myImputationProgramV3.1
##reference=1000GenomesPilot-NCBI36
##phasing=partial
##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency">
##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele">
##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129">
##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership">
##FILTER=<ID=q10,Description="Quality below 10">
##FILTER=<ID=s50,Description="Less than 50% of samples have data">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA00001 NA00002 NA00003
20 14370 rs6054257 G A 29 PASS NS=3;DP=14;AF=0.5;DB;H2 GT:GQ:DP:HQ 0|0:48:1:51,51 1|0:48:8:51,51 1/1:43:5:.,.
20 17330 . T A 3 q10 NS=3;DP=11;AF=0.017 GT:GQ:DP:HQ 0|0:49:3:58,50 0|1:3:5:65,3 0/0:41:3
20 1110696 rs6040355 A G,T 67 PASS NS=2;DP=10;AF=0.333,0.667;AA=T;DB GT:GQ:DP:HQ 1|2:21:6:23,27 2|1:2:0:18,2 2/2:35:4
20 1230237 . T . 47 PASS NS=3;DP=13;AA=T GT:GQ:DP:HQ 0|0:54:7:56,60 0|0:48:4:51,51 0/0:61:2
20 1234567 microsat1 GTCT G,GTACT 50 PASS NS=3;DP=9;AA=G GT:GQ:DP 0/1:35:4 0/2:17:2 1/1:40:3

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