TB-Profiler result

Run: SRR12634609
Summary

Run ID: SRR12634609

Sample name:

Date: 03-04-2023 06:56:59

Number of reads: 1546547

Percentage reads mapped: 54.05

Strain: lineage3.1.1

Drug-resistance: MDR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage3 East-African-Indian CAS RD750 1.0
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.1 East-African-Indian CAS1-Kili RD750 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
rpoB 761127 p.Ser441Ala missense_variant 0.26 rifampicin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.66 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.46 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247429 p.Met306Val missense_variant 1.0 ethambutol
ethA 4326284 p.Leu397Arg missense_variant 0.93 ethionamide
gid 4408087 c.115delC frameshift_variant 1.0 streptomycin
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8414 c.1113C>T synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.24
mshA 576211 c.864C>A synonymous_variant 0.21
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 760991 c.1185G>C synonymous_variant 0.12
rpoB 760997 c.1191G>C synonymous_variant 0.12
rpoB 761006 c.1200C>G synonymous_variant 0.12
rpoB 761015 c.1209G>C synonymous_variant 0.12
rpoB 761027 c.1221A>G synonymous_variant 0.27
rpoB 761036 c.1230G>C synonymous_variant 0.24
rpoB 761037 c.1231T>C synonymous_variant 0.24
rpoB 761046 p.Ile414Val missense_variant 0.19
rpoB 761051 c.1245G>T synonymous_variant 0.27
rpoB 761054 c.1248G>C synonymous_variant 0.29
rpoB 761057 c.1251G>C synonymous_variant 0.27
rpoB 761060 c.1254C>G synonymous_variant 0.29
rpoB 761063 c.1257C>G synonymous_variant 0.29
rpoB 761087 c.1281C>G synonymous_variant 0.25
rpoB 761088 c.1282_1284delAGCinsTCG synonymous_variant 0.25
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.22
rpoB 761102 c.1296A>G synonymous_variant 0.24
rpoB 761126 c.1320G>C synonymous_variant 0.23
rpoB 761132 c.1326G>T synonymous_variant 0.2
rpoB 761133 c.1327T>C synonymous_variant 0.2
rpoB 761150 c.1344A>C synonymous_variant 0.24
rpoB 761165 c.1359G>C synonymous_variant 0.19
rpoB 761180 c.1374A>G synonymous_variant 0.22
rpoB 761189 c.1383T>C synonymous_variant 0.21
rpoB 761192 c.1386C>G synonymous_variant 0.22
rpoB 761195 c.1389G>C synonymous_variant 0.2
rpoB 761196 p.Leu464Val missense_variant 0.2
rpoB 761213 c.1407G>C synonymous_variant 0.19
rpoB 761234 c.1428G>C synonymous_variant 0.17
rpoB 761249 c.1443A>G synonymous_variant 0.13
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762959 c.-411G>C upstream_gene_variant 0.19
rpoC 762980 c.-390T>C upstream_gene_variant 0.16
rpoC 762989 c.-381G>C upstream_gene_variant 0.16
rpoB 763005 p.Cys1067Gly missense_variant 0.15
rpoB 763014 p.Met1070Leu missense_variant 0.15
rpoB 763017 p.Gln1071Glu missense_variant 0.15
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763034 c.-336C>G upstream_gene_variant 0.15
rpoB 763038 p.Thr1078Ala missense_variant 0.15
rpoC 763043 c.-327G>C upstream_gene_variant 0.14
rpoC 763052 c.-318G>C upstream_gene_variant 0.13
rpoC 763053 c.-317T>C upstream_gene_variant 0.13
rpoC 763058 c.-312C>G upstream_gene_variant 0.19
rpoC 763070 c.-300T>C upstream_gene_variant 0.18
rpoB 763075 p.Thr1090Ile missense_variant 0.2
rpoC 763088 c.-282C>G upstream_gene_variant 0.15
rpoC 763462 c.93G>C synonymous_variant 0.12
rpoC 763468 c.99G>C synonymous_variant 0.17
rpoC 763486 c.117T>C synonymous_variant 0.17
rpoC 763492 c.123G>C synonymous_variant 0.16
rpoC 763504 c.135C>T synonymous_variant 0.25
rpoC 763511 p.Cys48Gly missense_variant 0.23
rpoC 763517 p.Lys50Gln missense_variant 0.24
rpoC 763528 c.159G>C synonymous_variant 0.23
rpoC 763531 c.162G>C synonymous_variant 0.25
rpoC 763532 p.Thr55Ser missense_variant 0.22
rpoC 763546 c.177A>G synonymous_variant 0.33
rpoC 763550 p.Tyr61Ala missense_variant 0.33
rpoC 763570 c.201G>C synonymous_variant 0.37
rpoC 763573 c.204G>C synonymous_variant 0.39
rpoC 763589 p.Ile74Val missense_variant 0.39
rpoC 763614 c.246_251delGACCCG disruptive_inframe_deletion 0.34
rpoC 763622 p.Ala85Thr missense_variant 0.31
rpoC 763626 c.258_259insAGCTCG conservative_inframe_insertion 0.28
rpoC 763633 c.264T>C synonymous_variant 0.3
rpoC 763642 c.273G>C synonymous_variant 0.33
rpoC 763660 c.291T>C synonymous_variant 0.32
rpoC 763666 c.297G>C synonymous_variant 0.31
rpoC 763696 c.327T>C synonymous_variant 0.2
rpoC 763708 c.339G>C synonymous_variant 0.14
rpoC 764497 c.1128A>G synonymous_variant 0.2
rpoC 764498 p.Ser377Ala missense_variant 0.22
rpoC 764503 c.1134G>C synonymous_variant 0.24
rpoC 764521 c.1152T>C synonymous_variant 0.27
rpoC 764524 c.1155C>G synonymous_variant 0.24
rpoC 764533 c.1164C>T synonymous_variant 0.3
rpoC 764536 c.1167G>T synonymous_variant 0.32
rpoC 764548 c.1179G>T synonymous_variant 0.32
rpoC 764549 p.Pro394Thr missense_variant 0.32
rpoC 764561 p.Pro398Ala missense_variant 0.33
rpoC 764566 c.1197C>G synonymous_variant 0.33
rpoC 764575 c.1206T>G synonymous_variant 0.39
rpoC 764581 c.1212T>C synonymous_variant 0.41
rpoC 764582 p.Leu405Met missense_variant 0.42
rpoC 764605 c.1236G>C synonymous_variant 0.47
rpoC 764611 c.1242G>T synonymous_variant 0.45
rpoC 764626 c.1257C>T synonymous_variant 0.38
rpoC 764632 c.1263T>C synonymous_variant 0.35
rpoC 764635 c.1266C>G synonymous_variant 0.33
rpoC 764650 c.1281G>T synonymous_variant 0.29
rpoC 764660 p.Val431Ile missense_variant 0.27
rpoC 764683 c.1314G>C synonymous_variant 0.23
rpoC 764713 c.1344G>C synonymous_variant 0.16
rpoC 764716 c.1347G>C synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.29
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.46
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.48
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.46
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.44
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.44
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.51
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.57
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.58
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.57
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.5
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.54
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.23
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.28
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.28
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.24
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.14
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.21
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.21
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.27
rrs 1472507 n.662C>T non_coding_transcript_exon_variant 0.35
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.52
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.52
rrs 1472571 n.726G>A non_coding_transcript_exon_variant 0.54
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.52
rrs 1472606 n.761C>G non_coding_transcript_exon_variant 0.57
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.61
rrs 1472623 n.778A>C non_coding_transcript_exon_variant 0.58
rrs 1472645 n.800G>C non_coding_transcript_exon_variant 0.59
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.57
rrs 1472660 n.815T>A non_coding_transcript_exon_variant 0.56
rrs 1472666 n.821G>T non_coding_transcript_exon_variant 0.55
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.52
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.52
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.51
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.51
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.52
rrs 1472686 n.841G>A non_coding_transcript_exon_variant 0.52
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.52
rrs 1472694 n.849C>A non_coding_transcript_exon_variant 0.52
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.52
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.51
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.32
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.13
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.2
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.48
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.51
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.48
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.51
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.57
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.55
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.55
rrs 1472993 n.1148G>T non_coding_transcript_exon_variant 0.56
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.68
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.66
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.65
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.66
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.67
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.65
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.64
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.62
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.61
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.65
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.65
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.68
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.66
rrs 1473147 n.1302G>A non_coding_transcript_exon_variant 0.67
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 0.67
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.67
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.68
rrs 1473269 n.1424C>T non_coding_transcript_exon_variant 0.65
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.64
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.63
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.61
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.61
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.58
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.47
rrs 1473320 n.1475G>A non_coding_transcript_exon_variant 0.46
rrs 1473324 n.1479G>A non_coding_transcript_exon_variant 0.47
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.13
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.23
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.23
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.28
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.4
rrl 1474265 n.608G>T non_coding_transcript_exon_variant 0.4
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.41
rrl 1474275 n.618T>A non_coding_transcript_exon_variant 0.35
rrl 1474280 n.623C>T non_coding_transcript_exon_variant 0.36
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.35
rrl 1474291 n.635_645delTTCCTCTCCGG non_coding_transcript_exon_variant 0.34
rrl 1474305 n.648G>T non_coding_transcript_exon_variant 0.3
rrl 1474308 n.653_654delTG non_coding_transcript_exon_variant 0.3
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.3
rrl 1474317 n.660G>A non_coding_transcript_exon_variant 0.31
rrl 1474351 n.694G>C non_coding_transcript_exon_variant 0.21
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.21
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.21
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.22
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.26
rrl 1474414 n.757C>T non_coding_transcript_exon_variant 0.16
rrl 1474444 n.787G>C non_coding_transcript_exon_variant 0.2
rrl 1474451 n.794T>C non_coding_transcript_exon_variant 0.27
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.28
rrl 1474466 n.809G>A non_coding_transcript_exon_variant 0.39
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.45
rrl 1474488 n.831G>C non_coding_transcript_exon_variant 0.51
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.53
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.54
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.57
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.57
rrl 1474516 n.859C>G non_coding_transcript_exon_variant 0.59
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.66
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.69
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.7
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.66
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.55
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.52
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.53
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.55
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.5
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.51
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.22
rrl 1474723 n.1066G>A non_coding_transcript_exon_variant 0.22
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.31
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.33
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.34
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.32
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.33
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.32
rrl 1474770 n.1113G>A non_coding_transcript_exon_variant 0.32
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.32
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.32
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.34
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.33
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.34
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.36
rrl 1474800 n.1143T>C non_coding_transcript_exon_variant 0.4
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.42
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.38
rrl 1474830 n.1173A>C non_coding_transcript_exon_variant 0.37
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.38
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.39
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.31
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.3
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.33
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.33
rrl 1474935 n.1278A>G non_coding_transcript_exon_variant 0.17
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.32
rrl 1475692 n.2035G>C non_coding_transcript_exon_variant 0.39
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.52
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.59
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.7
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.64
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.66
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.64
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.68
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.63
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.61
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.55
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.52
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.47
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.41
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.37
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.37
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.38
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.12
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.17
rrl 1476080 n.2423T>C non_coding_transcript_exon_variant 0.14
rrl 1476082 n.2425T>C non_coding_transcript_exon_variant 0.14
rrl 1476095 n.2438C>T non_coding_transcript_exon_variant 0.23
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.24
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.33
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.39
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.49
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.54
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.56
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.59
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.59
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.63
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.63
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.59
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.61
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.59
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.59
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.53
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.53
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.52
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.52
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.51
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.51
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.56
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.58
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.62
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.58
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.55
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.15
rrl 1476384 n.2727G>C non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.54
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.16
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.14
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.67
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.57
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.53
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.47
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.46
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.47
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.45
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.45
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.45
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.45
rrl 1476544 n.2887T>A non_coding_transcript_exon_variant 0.46
rrl 1476566 n.2909A>T non_coding_transcript_exon_variant 0.45
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.45
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.41
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.38
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.38
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.33
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.28
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.26
rpsA 1833742 c.201A>G synonymous_variant 0.15
rpsA 1833745 c.204G>C synonymous_variant 0.15
rpsA 1833781 c.240T>C synonymous_variant 0.12
rpsA 1833784 c.243C>G synonymous_variant 0.12
rpsA 1833790 c.249T>C synonymous_variant 0.15
rpsA 1833808 c.267G>C synonymous_variant 0.15
rpsA 1833815 p.Thr92Pro missense_variant 0.15
rpsA 1833829 c.288A>G synonymous_variant 0.14
rpsA 1833838 c.297G>C synonymous_variant 0.14
rpsA 1833856 c.315A>G synonymous_variant 0.14
rpsA 1833955 c.414G>C synonymous_variant 0.12
rpsA 1833959 p.Leu140Val missense_variant 0.12
rpsA 1833970 c.429G>C synonymous_variant 0.13
rpsA 1833979 c.438T>C synonymous_variant 0.14
rpsA 1833997 c.456G>C synonymous_variant 0.14
rpsA 1834000 c.459G>C synonymous_variant 0.13
rpsA 1834004 p.Met155Leu missense_variant 0.13
rpsA 1834012 c.471G>C synonymous_variant 0.13
rpsA 1834015 c.474G>C synonymous_variant 0.12
rpsA 1834024 c.483G>C synonymous_variant 0.13
rpsA 1834026 p.Gln162Pro missense_variant 0.13
rpsA 1834030 c.489C>G synonymous_variant 0.13
rpsA 1834378 c.837T>G synonymous_variant 0.12
rpsA 1834384 c.843A>G synonymous_variant 0.12
rpsA 1834397 p.His286Asp missense_variant 0.12
rpsA 1834411 c.870T>G synonymous_variant 0.13
rpsA 1834431 p.Val297Ala missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170461 p.Gly51Glu missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448955 c.454delG frameshift_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4039714 p.Tyr331His missense_variant 0.15
clpC1 4039724 c.981A>G synonymous_variant 0.17
clpC1 4039733 c.972G>C synonymous_variant 0.17
clpC1 4039736 c.969C>G synonymous_variant 0.17
clpC1 4039751 c.954A>G synonymous_variant 0.16
clpC1 4039757 c.948A>G synonymous_variant 0.16
clpC1 4039760 c.945T>C synonymous_variant 0.15
clpC1 4039766 c.939T>G synonymous_variant 0.14
clpC1 4039772 p.Lys311His missense_variant 0.14
clpC1 4039775 c.930G>C synonymous_variant 0.15
clpC1 4039778 c.927A>G synonymous_variant 0.14
clpC1 4039793 c.912C>G synonymous_variant 0.16
clpC1 4039817 c.888A>C synonymous_variant 0.17
clpC1 4039820 c.885T>G synonymous_variant 0.16
clpC1 4039826 c.879C>G synonymous_variant 0.14
clpC1 4039829 c.874_876delTTGinsCTC synonymous_variant 0.12
embC 4240172 p.Val104Met missense_variant 1.0
embC 4241562 p.Arg567His missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328154 c.-681C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0