TB-Profiler result

Run: SRR1049582
Summary

Run ID: SRR1049582

Sample name:

Date: 02-04-2023 17:58:57

Number of reads: 3388012

Percentage reads mapped: 71.68

Strain: lineage4.6.1.2

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.6 Euro-American T;LAM None 0.97
lineage4.6.1 Euro-American (Uganda) T2 RD724 0.98
lineage4.6.1.2 Euro-American T2 RD724 0.99
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 761155 p.Ser450Leu missense_variant 0.89 rifampicin
rpoC 764363 p.Gly332Arg missense_variant 0.77 rifampicin
rpsL 781822 p.Lys88Arg missense_variant 0.49 streptomycin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.78 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.7 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.49 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2155168 p.Ser315Thr missense_variant 0.98 isoniazid
ethA 4326110 p.Trp455* stop_gained 0.94 ethionamide
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 7539 p.Thr80Ala missense_variant 0.96
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9276 c.1975C>T synonymous_variant 0.96
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575990 p.Val215Ile missense_variant 0.14
rpoB 760206 p.Ile134Val missense_variant 0.17
rpoB 760212 p.Asn136Tyr missense_variant 0.2
rpoB 760216 p.Asn137Thr missense_variant 0.2
rpoB 760235 c.429T>C synonymous_variant 0.22
rpoB 760241 c.435G>C synonymous_variant 0.2
rpoB 760244 c.438G>C synonymous_variant 0.2
rpoB 760253 c.447T>C synonymous_variant 0.2
rpoB 760263 p.Met153Leu missense_variant 0.21
rpoB 760270 p.Thr155Ser missense_variant 0.22
rpoB 760275 p.Lys157Arg missense_variant 0.22
rpoB 760298 c.492G>C synonymous_variant 0.2
rpoB 761207 c.1401C>T synonymous_variant 0.13
rpoB 761213 c.1407G>C synonymous_variant 0.13
rpoB 761234 c.1428G>C synonymous_variant 0.18
rpoB 761249 c.1443A>G synonymous_variant 0.18
rpoB 761261 c.1455G>C synonymous_variant 0.19
rpoB 761264 c.1458C>G synonymous_variant 0.19
rpoB 761273 c.1467T>C synonymous_variant 0.18
rpoB 761276 c.1470G>C synonymous_variant 0.19
rpoB 762003 p.Asn733His missense_variant 0.12
rpoB 762020 p.Glu738Asp missense_variant 0.13
rpoB 762029 c.2223C>G synonymous_variant 0.14
rpoB 762030 p.Thr742Ser missense_variant 0.14
rpoB 762053 c.2247T>C synonymous_variant 0.15
rpoB 762849 p.Tyr1015Asp missense_variant 0.16
rpoC 762857 c.-513C>G upstream_gene_variant 0.16
rpoB 762858 p.Thr1018Ser missense_variant 0.17
rpoC 762863 c.-507T>C upstream_gene_variant 0.19
rpoB 762879 p.Met1025Leu missense_variant 0.29
rpoC 762920 c.-450C>G upstream_gene_variant 0.36
rpoC 762923 c.-447C>G upstream_gene_variant 0.36
rpoC 762929 c.-441G>C upstream_gene_variant 0.33
rpoC 762947 c.-423C>G upstream_gene_variant 0.28
rpoC 762962 c.-408C>T upstream_gene_variant 0.25
rpoC 762980 c.-390T>C upstream_gene_variant 0.18
rpoC 763456 c.87A>G synonymous_variant 0.12
rpoC 763462 c.93G>C synonymous_variant 0.2
rpoC 763468 c.99G>C synonymous_variant 0.28
rpoC 763480 c.111C>G synonymous_variant 0.33
rpoC 763483 c.114G>C synonymous_variant 0.34
rpoC 763486 c.117T>G synonymous_variant 0.34
rpoC 763504 c.135C>G synonymous_variant 0.41
rpoC 763507 c.138G>C synonymous_variant 0.42
rpoC 763528 c.159G>T synonymous_variant 0.52
rpoC 763531 c.162G>C synonymous_variant 0.52
rpoC 763534 c.165T>C synonymous_variant 0.52
rpoC 763537 c.168C>G synonymous_variant 0.52
rpoC 763546 c.177A>G synonymous_variant 0.52
rpoC 763570 c.201G>C synonymous_variant 0.49
rpoC 763622 p.Ala85Ser missense_variant 0.48
rpoC 763630 c.261G>C synonymous_variant 0.47
rpoC 763633 c.264T>C synonymous_variant 0.47
rpoC 763642 c.273G>C synonymous_variant 0.49
rpoC 763660 c.291T>G synonymous_variant 0.48
rpoC 763675 c.306C>G synonymous_variant 0.52
rpoC 763686 p.Tyr106Phe missense_variant 0.5
rpoC 763696 c.327T>C synonymous_variant 0.47
rpoC 763708 c.339G>C synonymous_variant 0.44
rpoC 763711 c.342G>C synonymous_variant 0.44
rpoC 763714 c.345G>C synonymous_variant 0.44
rpoC 763717 c.348T>C synonymous_variant 0.44
rpoC 763732 c.363C>G synonymous_variant 0.39
rpoC 763751 p.Ile128Val missense_variant 0.3
rpoC 763765 c.396T>G synonymous_variant 0.21
rpoC 763772 p.Val135Met missense_variant 0.15
rpoC 764311 c.942C>G synonymous_variant 0.12
rpoC 764326 c.957G>C synonymous_variant 0.22
rpoC 764338 p.Glu323Asp missense_variant 0.22
rpoC 764383 c.1014C>G synonymous_variant 0.21
rpoC 764387 c.1018T>C synonymous_variant 0.24
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.18
rpoC 764410 c.1041G>C synonymous_variant 0.18
rpoC 764419 c.1050C>G synonymous_variant 0.16
rpoC 764452 c.1083T>C synonymous_variant 0.12
rpoC 764461 c.1092A>G synonymous_variant 0.16
rpoC 764491 c.1122G>C synonymous_variant 0.14
rpoC 764497 c.1128A>G synonymous_variant 0.13
rpoC 764498 p.Ser377Ala missense_variant 0.14
rpoC 764507 p.Ala380Ser missense_variant 0.23
rpoC 764521 c.1152T>C synonymous_variant 0.34
rpoC 764536 c.1167G>C synonymous_variant 0.41
rpoC 764539 c.1170C>G synonymous_variant 0.42
rpoC 764545 c.1176C>G synonymous_variant 0.41
rpoC 764548 c.1179G>C synonymous_variant 0.41
rpoC 764551 c.1182G>C synonymous_variant 0.41
rpoC 764560 c.1191T>C synonymous_variant 0.43
rpoC 764566 c.1197C>G synonymous_variant 0.42
rpoC 764573 p.Leu402Ile missense_variant 0.4
rpoC 764581 c.1212T>C synonymous_variant 0.41
rpoC 764582 p.Leu405Met missense_variant 0.41
rpoC 764611 c.1242G>C synonymous_variant 0.46
rpoC 764632 c.1263T>C synonymous_variant 0.47
rpoC 764650 c.1281G>T synonymous_variant 0.52
rpoC 764662 c.1293G>C synonymous_variant 0.51
rpoC 764701 c.1332C>G synonymous_variant 0.52
rpoC 764706 p.Leu446Gln missense_variant 0.54
rpoC 764716 c.1347G>C synonymous_variant 0.54
rpoC 764746 c.1377G>T synonymous_variant 0.42
rpoC 764752 c.1383G>C synonymous_variant 0.42
rpoC 764758 c.1389C>G synonymous_variant 0.41
rpoC 764764 c.1395T>C synonymous_variant 0.42
rpoC 764780 c.1411_1413delAGCinsTCG synonymous_variant 0.36
rpoC 764797 c.1428G>C synonymous_variant 0.29
rpoC 764804 p.Gln479Ala missense_variant 0.15
rpoC 764810 p.Pro481Thr missense_variant 0.81
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781748 c.189C>G synonymous_variant 0.15
rpsL 781760 c.201T>C synonymous_variant 0.38
rpsL 781766 c.207C>T synonymous_variant 0.41
rpsL 781772 c.213C>G synonymous_variant 0.43
rpsL 781796 p.Met79Ile missense_variant 0.45
rpsL 781802 c.243G>C synonymous_variant 0.46
rpsL 781817 c.258G>T synonymous_variant 0.48
rpsL 781829 c.270G>C synonymous_variant 0.47
rpsL 781832 c.273T>C synonymous_variant 0.47
rpsL 781835 c.276T>C synonymous_variant 0.48
rpsL 781838 c.279G>C synonymous_variant 0.48
rpsL 781856 c.297C>T synonymous_variant 0.3
rpsL 781859 c.300T>C synonymous_variant 0.24
rpsL 781860 p.Ser101Ala missense_variant 0.24
rpsL 781868 c.309T>C synonymous_variant 0.19
rpsL 781871 c.312G>C synonymous_variant 0.19
rplC 800612 c.-197A>G upstream_gene_variant 0.15
rplC 800618 c.-191T>G upstream_gene_variant 0.2
rplC 800630 c.-179G>C upstream_gene_variant 0.25
rplC 800632 c.-177_-176delATinsTC upstream_gene_variant 0.25
rplC 800645 c.-164C>G upstream_gene_variant 0.24
rplC 800648 c.-161A>G upstream_gene_variant 0.24
rplC 800651 c.-158G>T upstream_gene_variant 0.23
rplC 800654 c.-155T>C upstream_gene_variant 0.23
rplC 800667 c.-142_-140delTCGinsAGC upstream_gene_variant 0.27
rplC 800672 c.-137G>C upstream_gene_variant 0.26
rplC 800693 c.-116A>G upstream_gene_variant 0.28
rplC 800703 c.-106_-104delTTGinsCTC upstream_gene_variant 0.22
fbiC 1303391 p.Arg154His missense_variant 1.0
fbiC 1304509 p.Ala527Ser missense_variant 0.13
embR 1416410 p.Leu313Arg missense_variant 0.91
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.69
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.71
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.79
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.79
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.82
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.75
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.7
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.2
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.16
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.43
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.45
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.49
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.49
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.48
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.41
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.51
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.5
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.52
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.82
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.82
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.82
rrs 1472583 n.738T>C non_coding_transcript_exon_variant 0.83
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.81
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.76
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.73
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.66
rrs 1472674 n.829T>C non_coding_transcript_exon_variant 0.65
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.65
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.65
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.65
rrs 1472685 n.840G>A non_coding_transcript_exon_variant 0.64
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.66
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.72
rrs 1472701 n.856T>A non_coding_transcript_exon_variant 0.74
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.79
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.78
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.71
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.21
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.18
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.18
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.24
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.51
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.85
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.86
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.86
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.88
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.88
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.88
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.88
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.87
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.85
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.85
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.85
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.83
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.81
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.8
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.8
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.8
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.8
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.78
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.68
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.58
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.51
rrs 1473292 n.1447G>A non_coding_transcript_exon_variant 0.45
rrs 1473294 n.1449A>G non_coding_transcript_exon_variant 0.47
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.51
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.51
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.51
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.28
rrl 1473788 n.131A>C non_coding_transcript_exon_variant 0.32
rrl 1473797 n.140G>C non_coding_transcript_exon_variant 0.27
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.25
rrl 1473807 n.150T>G non_coding_transcript_exon_variant 0.25
rrl 1473815 n.158T>C non_coding_transcript_exon_variant 0.24
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.26
rrl 1473833 n.176_177insT non_coding_transcript_exon_variant 0.28
rrl 1473845 n.188G>C non_coding_transcript_exon_variant 0.27
rrl 1473869 n.212C>G non_coding_transcript_exon_variant 0.15
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.33
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.33
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.33
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.47
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.46
rrl 1474290 n.633T>C non_coding_transcript_exon_variant 0.3
rrl 1474291 n.635_645delTTCCTCTCCGG non_coding_transcript_exon_variant 0.33
rrl 1474305 n.648G>C non_coding_transcript_exon_variant 0.3
rrl 1474308 n.653_654delTG non_coding_transcript_exon_variant 0.32
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.37
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.18
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.15
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.14
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.15
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.15
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.15
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.15
rrl 1474381 n.724T>A non_coding_transcript_exon_variant 0.14
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.13
rrl 1474402 n.745T>C non_coding_transcript_exon_variant 0.14
rrl 1474406 n.749T>C non_coding_transcript_exon_variant 0.13
rrl 1474450 n.793T>C non_coding_transcript_exon_variant 0.17
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.19
rrl 1474466 n.809G>A non_coding_transcript_exon_variant 0.46
rrl 1474476 n.819C>G non_coding_transcript_exon_variant 0.54
rrl 1474483 n.826C>G non_coding_transcript_exon_variant 0.56
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.57
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.7
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.72
rrl 1474529 n.872A>G non_coding_transcript_exon_variant 0.71
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.73
rrl 1474540 n.883T>C non_coding_transcript_exon_variant 0.72
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.72
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.71
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.72
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.7
rrl 1474624 n.967G>C non_coding_transcript_exon_variant 0.61
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.61
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.61
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.61
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.6
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.6
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.59
rrl 1474660 n.1003G>A non_coding_transcript_exon_variant 0.61
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.62
rrl 1474690 n.1033C>T non_coding_transcript_exon_variant 0.63
rrl 1474709 n.1053_1056delTGGT non_coding_transcript_exon_variant 0.57
rrl 1474717 n.1060_1061insGTGAG non_coding_transcript_exon_variant 0.55
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.55
rrl 1474725 n.1068C>G non_coding_transcript_exon_variant 0.6
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.66
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.69
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.7
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.67
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.66
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.67
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.68
rrl 1474801 n.1144G>A non_coding_transcript_exon_variant 0.71
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.78
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.77
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.77
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.67
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.64
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.63
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.42
rrl 1474934 n.1277C>T non_coding_transcript_exon_variant 0.38
rrl 1474946 n.1289C>T non_coding_transcript_exon_variant 0.13
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.45
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 0.55
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.55
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.55
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 0.56
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.57
rrl 1475499 n.1842C>T non_coding_transcript_exon_variant 0.47
rrl 1475508 n.1851A>T non_coding_transcript_exon_variant 0.55
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.53
rrl 1475538 n.1881T>A non_coding_transcript_exon_variant 0.54
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.54
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.54
rrl 1475548 n.1891C>T non_coding_transcript_exon_variant 0.54
rrl 1475549 n.1892T>C non_coding_transcript_exon_variant 0.54
rrl 1475550 n.1893A>G non_coding_transcript_exon_variant 0.54
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.2
rrl 1475649 n.1992A>G non_coding_transcript_exon_variant 0.39
rrl 1475655 n.1998T>G non_coding_transcript_exon_variant 0.45
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.47
rrl 1475757 n.2100A>C non_coding_transcript_exon_variant 0.69
rrl 1475759 n.2102C>G non_coding_transcript_exon_variant 0.68
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.69
rrl 1475776 n.2119G>C non_coding_transcript_exon_variant 0.69
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.85
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.85
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.84
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.83
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.83
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.84
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.49
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.84
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.84
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.8
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.78
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.78
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.78
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.74
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.73
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.16
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.55
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.82
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.84
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.84
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.84
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.82
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.81
rrl 1476235 n.2578A>G non_coding_transcript_exon_variant 0.45
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.75
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.72
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.68
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.68
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.5
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.45
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.14
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.75
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.79
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.82
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.8
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.76
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.75
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.71
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.69
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.69
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.69
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.68
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.68
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.68
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.68
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.68
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.64
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.59
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.6
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.59
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.58
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.6
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.6
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.6
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.61
rrl 1476661 n.3004A>G non_coding_transcript_exon_variant 0.36
rrl 1476665 n.3008T>G non_coding_transcript_exon_variant 0.3
rrl 1476668 n.3011C>T non_coding_transcript_exon_variant 0.26
rrl 1476675 n.3018C>G non_coding_transcript_exon_variant 0.2
rpsA 1833628 c.87G>C synonymous_variant 0.16
rpsA 1833646 c.105T>C synonymous_variant 0.47
rpsA 1833649 c.108C>T synonymous_variant 0.49
rpsA 1833661 c.120A>G synonymous_variant 0.58
rpsA 1833676 c.135A>G synonymous_variant 0.68
rpsA 1833679 c.138G>C synonymous_variant 0.65
rpsA 1833685 c.144G>C synonymous_variant 0.65
rpsA 1833694 c.153G>C synonymous_variant 0.63
rpsA 1833697 c.156C>G synonymous_variant 0.62
rpsA 1833721 c.180A>G synonymous_variant 0.6
rpsA 1833727 c.186G>C synonymous_variant 0.57
rpsA 1833733 c.192C>G synonymous_variant 0.52
rpsA 1833734 p.Ala65Ser missense_variant 0.51
rpsA 1833742 c.201A>G synonymous_variant 0.49
rpsA 1833763 c.222C>G synonymous_variant 0.37
rpsA 1833769 c.228C>G synonymous_variant 0.22
rpsA 1833770 p.Asn77Gly missense_variant 0.2
rpsA 1833781 c.240T>C synonymous_variant 0.16
rpsA 1833782 p.Ser81Lys missense_variant 0.16
rpsA 1833802 c.261A>G synonymous_variant 0.23
rpsA 1833808 c.267G>C synonymous_variant 0.19
rpsA 1833811 c.270G>C synonymous_variant 0.18
rpsA 1833815 p.Thr92Gln missense_variant 0.17
rpsA 1833829 c.288A>G synonymous_variant 0.18
rpsA 1833832 c.291G>A synonymous_variant 0.18
rpsA 1833841 c.300C>G synonymous_variant 0.16
rpsA 1833847 c.306C>G synonymous_variant 0.14
rpsA 1833856 c.315A>G synonymous_variant 0.16
rpsA 1833862 c.321G>C synonymous_variant 0.25
rpsA 1833874 c.333T>C synonymous_variant 0.31
rpsA 1833886 c.345C>G synonymous_variant 0.24
rpsA 1833893 p.Ala118Lys missense_variant 0.23
rpsA 1833896 p.Leu119Ile missense_variant 0.23
rpsA 1833905 p.Lys122Glu missense_variant 0.23
rpsA 1833912 p.Glu124Gly missense_variant 0.24
rpsA 1833915 p.Ala125Val missense_variant 0.24
rpsA 1833921 p.Lys127Thr missense_variant 0.24
rpsA 1833928 c.387G>C synonymous_variant 0.27
rpsA 1833940 c.399C>G synonymous_variant 0.33
rpsA 1833955 c.414G>C synonymous_variant 0.34
rpsA 1833970 c.429G>C synonymous_variant 0.48
rpsA 1833973 c.432G>C synonymous_variant 0.52
rpsA 1833979 c.438T>C synonymous_variant 0.58
rpsA 1833994 c.453G>C synonymous_variant 0.65
rpsA 1834009 c.468C>T synonymous_variant 0.67
rpsA 1834012 c.471G>C synonymous_variant 0.68
rpsA 1834015 c.474G>C synonymous_variant 0.68
rpsA 1834024 c.483G>C synonymous_variant 0.73
rpsA 1834030 c.489C>G synonymous_variant 0.72
rpsA 1834034 p.Ile165Val missense_variant 0.73
rpsA 1834054 c.513C>G synonymous_variant 0.76
rpsA 1834069 c.528G>C synonymous_variant 0.71
rpsA 1834093 c.552G>C synonymous_variant 0.62
rpsA 1834099 c.558C>G synonymous_variant 0.56
rpsA 1834102 c.561T>C synonymous_variant 0.55
rpsA 1834108 c.567C>G synonymous_variant 0.51
rpsA 1834114 c.573G>C synonymous_variant 0.49
rpsA 1834123 c.582C>G synonymous_variant 0.37
rpsA 1834135 c.594G>C synonymous_variant 0.12
rpsA 1834210 c.669C>T synonymous_variant 0.45
rpsA 1834222 c.681T>C synonymous_variant 0.43
rpsA 1834225 c.684C>G synonymous_variant 0.44
rpsA 1834231 c.690T>C synonymous_variant 0.45
rpsA 1834240 c.699T>G synonymous_variant 0.48
rpsA 1834243 c.702G>C synonymous_variant 0.5
rpsA 1834249 c.708T>C synonymous_variant 0.54
rpsA 1834261 c.720A>G synonymous_variant 0.6
rpsA 1834264 c.723G>C synonymous_variant 0.62
rpsA 1834294 c.753G>C synonymous_variant 0.56
rpsA 1834298 p.Gln253Glu missense_variant 0.53
rpsA 1834303 c.762T>C synonymous_variant 0.51
rpsA 1834306 c.765T>C synonymous_variant 0.51
rpsA 1834307 p.Asp256Gln missense_variant 0.51
rpsA 1834318 c.777C>G synonymous_variant 0.53
rpsA 1834327 c.786G>C synonymous_variant 0.55
rpsA 1834330 c.789C>G synonymous_variant 0.52
rpsA 1834340 p.Met267Phe missense_variant 0.44
rpsA 1834348 c.807T>C synonymous_variant 0.39
rpsA 1834357 c.816T>C synonymous_variant 0.29
rpsA 1834361 c.820T>C synonymous_variant 0.26
rpsA 1834366 c.825A>G synonymous_variant 0.18
rpsA 1834369 c.828C>G synonymous_variant 0.14
rpsA 1834423 c.882G>C synonymous_variant 0.15
rpsA 1834427 p.Ile296Val missense_variant 0.17
rpsA 1834432 c.891G>C synonymous_variant 0.2
rpsA 1834435 c.894G>C synonymous_variant 0.23
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 0.34
rpsA 1834456 c.915T>C synonymous_variant 0.33
rpsA 1834468 c.927A>G synonymous_variant 0.33
rpsA 1834474 c.933C>G synonymous_variant 0.34
rpsA 1834486 p.Glu315Asp missense_variant 0.35
rpsA 1834489 c.948T>C synonymous_variant 0.35
rpsA 1834513 c.972C>G synonymous_variant 0.34
rpsA 1834524 p.Glu328Val missense_variant 0.27
rpsA 1834528 c.987T>C synonymous_variant 0.25
rpsA 1834538 p.Val333Met missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859728 p.Ser231Thr missense_variant 0.2
Rv2752c 3065920 p.Pro91Leu missense_variant 1.0
ald 3087593 p.Met258Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642191 c.657G>A synonymous_variant 0.4
rpoA 3877920 c.588G>C synonymous_variant 0.16
rpoA 3877928 p.Leu194Val missense_variant 0.18
rpoA 3877931 p.Ile193Val missense_variant 0.18
rpoA 3877932 c.576G>C synonymous_variant 0.18
rpoA 3877962 c.546G>T synonymous_variant 0.18
rpoA 3877965 c.543C>G synonymous_variant 0.18
rpoA 3877971 p.Asp179Glu missense_variant 0.19
rpoA 3877974 c.534G>C synonymous_variant 0.19
rpoA 3877989 c.519A>G synonymous_variant 0.22
rpoA 3877995 c.513G>C synonymous_variant 0.21
rpoA 3878001 c.507A>G synonymous_variant 0.19
rpoA 3878204 p.Pro102Ala missense_variant 0.13
rpoA 3878217 c.291A>G synonymous_variant 0.21
rpoA 3878226 p.Thr94Val missense_variant 0.23
rpoA 3878241 p.Glu89Asn missense_variant 0.25
rpoA 3878247 c.261G>C synonymous_variant 0.25
rpoA 3878256 c.252G>C synonymous_variant 0.28
rpoA 3878259 c.249G>C synonymous_variant 0.27
rpoA 3878263 p.Ser82Asn missense_variant 0.26
rpoA 3878270 p.Leu80Ile missense_variant 0.25
rpoA 3878271 c.237T>C synonymous_variant 0.25
rpoA 3878274 c.234G>C synonymous_variant 0.25
rpoA 3878295 c.213A>G synonymous_variant 0.2
rpoA 3878298 c.210A>G synonymous_variant 0.19
rpoA 3878303 c.204_205insC frameshift_variant 0.12
clpC1 4038842 c.1863G>C synonymous_variant 0.13
clpC1 4038854 p.Lys617Arg missense_variant 0.15
clpC1 4038857 c.1848C>T synonymous_variant 0.2
clpC1 4038872 c.1833C>G synonymous_variant 0.17
clpC1 4038878 c.1827A>G synonymous_variant 0.16
clpC1 4038890 p.Glu605Asp missense_variant 0.16
clpC1 4038896 c.1809C>G synonymous_variant 0.16
clpC1 4038905 c.1800A>C synonymous_variant 0.13
clpC1 4039817 c.888A>T synonymous_variant 0.25
clpC1 4039820 c.885T>G synonymous_variant 0.26
clpC1 4039826 c.879C>G synonymous_variant 0.26
clpC1 4039829 c.874_876delTTGinsCTC synonymous_variant 0.25
clpC1 4039838 p.Leu289Ile missense_variant 0.25
clpC1 4039850 c.855T>C synonymous_variant 0.3
clpC1 4039865 c.840T>C synonymous_variant 0.34
clpC1 4039871 c.834C>G synonymous_variant 0.35
clpC1 4039875 p.Asn277Arg missense_variant 0.33
clpC1 4039898 c.807C>G synonymous_variant 0.37
clpC1 4039904 c.801A>G synonymous_variant 0.34
clpC1 4039925 c.780C>G synonymous_variant 0.27
clpC1 4039929 c.775_776delAGinsTC synonymous_variant 0.28
clpC1 4039934 c.771G>C synonymous_variant 0.28
clpC1 4039945 p.Ser254Ala missense_variant 0.28
clpC1 4039946 c.759A>C synonymous_variant 0.26
clpC1 4039949 c.756G>C synonymous_variant 0.28
clpC1 4039952 c.753T>C synonymous_variant 0.29
clpC1 4039979 c.726C>G synonymous_variant 0.34
clpC1 4039988 c.717C>G synonymous_variant 0.29
clpC1 4039994 p.Glu237Asp missense_variant 0.29
clpC1 4040000 p.His235Arg missense_variant 0.23
clpC1 4040003 c.702G>C synonymous_variant 0.23
clpC1 4040010 p.Ala232Asp missense_variant 0.24
clpC1 4040015 c.690G>C synonymous_variant 0.25
clpC1 4040018 c.687G>C synonymous_variant 0.25
clpC1 4040021 c.684A>C synonymous_variant 0.27
clpC1 4040024 c.681A>G synonymous_variant 0.29
clpC1 4040036 c.669C>G synonymous_variant 0.33
clpC1 4040087 c.618G>C synonymous_variant 0.31
clpC1 4040090 c.615T>C synonymous_variant 0.31
clpC1 4040093 c.612C>G synonymous_variant 0.31
clpC1 4040117 c.588A>G synonymous_variant 0.31
clpC1 4040129 c.576C>G synonymous_variant 0.27
clpC1 4040144 c.561G>C synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245055 p.Thr608Asn missense_variant 0.98
ubiA 4269317 p.Ser173Ala missense_variant 0.61
ethR 4328171 p.Val208Ala missense_variant 0.95
whiB6 4338595 c.-75delG upstream_gene_variant 1.0