TB-Profiler result

Run: SRR1049673
Summary

Run ID: SRR1049673

Sample name:

Date: 02-04-2023 18:14:38

Number of reads: 1415029

Percentage reads mapped: 22.37

Strain: lineage3

Drug-resistance: Pre-XDR-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
lineage3 East-African-Indian CAS RD750 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
gyrA 7570 p.Ala90Val missense_variant 0.16 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
gyrA 7572 p.Ser91Pro missense_variant 0.36 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
gyrA 7581 p.Asp94Asn missense_variant 0.39 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761127 p.Ser441Ala missense_variant 0.23 rifampicin
rpsL 781822 p.Lys88Arg missense_variant 0.42 streptomycin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.31 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.43 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.36 kanamycin, capreomycin, aminoglycosides, amikacin
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619825 c.-66G>T upstream_gene_variant 0.22
rpoB 759746 c.-61C>T upstream_gene_variant 0.95
rpoB 760997 c.1191G>C synonymous_variant 0.16
rpoB 761003 c.1197C>G synonymous_variant 0.15
rpoB 761015 c.1209G>C synonymous_variant 0.2
rpoB 761027 c.1221A>G synonymous_variant 0.29
rpoB 761037 c.1231_1233delTTGinsCTC synonymous_variant 0.25
rpoB 761051 c.1245G>T synonymous_variant 0.3
rpoB 761054 c.1248G>C synonymous_variant 0.3
rpoB 761057 c.1251G>C synonymous_variant 0.28
rpoB 761060 c.1254C>G synonymous_variant 0.3
rpoB 761084 c.1278C>A synonymous_variant 0.29
rpoB 761088 c.1282_1284delAGCinsTCG synonymous_variant 0.26
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.25
rpoB 761102 c.1296A>G synonymous_variant 0.24
rpoB 761111 c.1305C>T synonymous_variant 0.24
rpoB 761126 c.1320G>C synonymous_variant 0.23
rpoB 761132 c.1326G>T synonymous_variant 0.24
rpoB 761133 c.1327T>C synonymous_variant 0.24
rpoB 761147 c.1341C>T synonymous_variant 0.24
rpoB 761150 c.1344A>C synonymous_variant 0.22
rpoB 761156 c.1350G>T synonymous_variant 0.25
rpoB 761165 c.1359G>C synonymous_variant 0.16
rpoB 761195 c.1389G>C synonymous_variant 0.14
rpoB 761207 c.1401C>T synonymous_variant 0.15
rpoB 761213 c.1407G>C synonymous_variant 0.21
rpoB 761234 c.1428G>C synonymous_variant 0.26
rpoB 761249 c.1443A>G synonymous_variant 0.21
rpoB 761255 c.1449T>C synonymous_variant 0.19
rpoB 761261 c.1455G>T synonymous_variant 0.19
rpoB 761264 c.1458C>G synonymous_variant 0.18
rpoB 761276 c.1470G>C synonymous_variant 0.18
rpoB 761282 c.1476C>T synonymous_variant 0.19
rpoB 761304 p.Val500Ile missense_variant 0.15
rpoB 761961 p.Pro719Ser missense_variant 0.27
rpoB 761973 p.His723Tyr missense_variant 0.36
rpoB 761980 p.Tyr725Phe missense_variant 0.42
rpoB 761987 c.2181C>T synonymous_variant 0.49
rpoB 761999 c.2193G>C synonymous_variant 0.47
rpoB 762002 c.2196C>G synonymous_variant 0.47
rpoB 762003 p.Asn733Gln missense_variant 0.48
rpoB 762015 p.Glu737Gln missense_variant 0.49
rpoB 762020 p.Glu738Asp missense_variant 0.47
rpoB 762026 c.2220G>C synonymous_variant 0.48
rpoB 762030 p.Thr742Ser missense_variant 0.48
rpoB 762053 c.2247T>C synonymous_variant 0.46
rpoB 762057 p.Ile751Val missense_variant 0.4
rpoB 762062 c.2256T>C synonymous_variant 0.33
rpoB 762065 c.2259T>C synonymous_variant 0.3
rpoB 762080 c.2274G>C synonymous_variant 0.22
rpoB 762086 c.2280G>C synonymous_variant 0.13
rpoB 762185 c.2379G>C synonymous_variant 0.37
rpoB 762194 c.2388G>C synonymous_variant 0.43
rpoB 762233 c.2427G>C synonymous_variant 0.53
rpoB 762245 c.2439G>T synonymous_variant 0.52
rpoB 762251 c.2445G>C synonymous_variant 0.52
rpoB 762254 c.2448T>G synonymous_variant 0.52
rpoB 762257 c.2451C>G synonymous_variant 0.53
rpoB 762273 p.Ala823Ser missense_variant 0.52
rpoB 762278 c.2472C>T synonymous_variant 0.42
rpoB 762284 c.2478G>C synonymous_variant 0.36
rpoB 762293 c.2487T>C synonymous_variant 0.27
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762452 c.-918G>C upstream_gene_variant 0.13
rpoC 762470 c.-900G>C upstream_gene_variant 0.16
rpoB 762474 p.Gly890Ser missense_variant 0.17
rpoB 762478 p.Lys891Thr missense_variant 0.17
rpoC 762491 c.-879T>C upstream_gene_variant 0.18
rpoC 762509 c.-861T>C upstream_gene_variant 0.15
rpoB 762855 p.Val1017Ile missense_variant 0.24
rpoB 762858 p.Thr1018Ser missense_variant 0.25
rpoC 762863 c.-507T>C upstream_gene_variant 0.23
rpoC 762866 c.-504C>A upstream_gene_variant 0.25
rpoB 762878 p.Ile1024Met missense_variant 0.28
rpoB 762879 p.Met1025Leu missense_variant 0.27
rpoC 762887 c.-483G>C upstream_gene_variant 0.38
rpoC 762896 c.-474G>C upstream_gene_variant 0.46
rpoC 762899 c.-471G>C upstream_gene_variant 0.48
rpoC 762917 c.-453C>G upstream_gene_variant 0.49
rpoC 762923 c.-447C>G upstream_gene_variant 0.46
rpoC 762929 c.-441G>T upstream_gene_variant 0.44
rpoC 762980 c.-390T>C upstream_gene_variant 0.51
rpoC 762983 c.-387C>T upstream_gene_variant 0.49
rpoC 762989 c.-381G>C upstream_gene_variant 0.48
rpoC 762995 c.-375G>T upstream_gene_variant 0.45
rpoB 763002 c.3197dupA frameshift_variant 0.39
rpoB 763006 c.3201delC frameshift_variant 0.38
rpoB 763014 p.Met1070Leu missense_variant 0.42
rpoB 763017 p.Gln1071Glu missense_variant 0.42
rpoC 763031 c.-339T>G upstream_gene_variant 1.0
rpoC 763034 c.-336C>G upstream_gene_variant 0.43
rpoC 763040 c.-330C>G upstream_gene_variant 0.37
rpoC 763053 c.-317T>C upstream_gene_variant 0.32
rpoC 763058 c.-312C>G upstream_gene_variant 0.25
rpoC 763085 c.-285C>T upstream_gene_variant 0.27
rpoC 763094 c.-276G>C upstream_gene_variant 0.38
rpoC 763100 c.-270G>A upstream_gene_variant 0.38
rpoC 763103 c.-267G>C upstream_gene_variant 0.39
rpoB 763122 p.Ile1106Leu missense_variant 0.43
rpoC 763127 c.-243G>C upstream_gene_variant 0.42
rpoB 763130 p.Glu1108Asp missense_variant 0.39
rpoC 763136 c.-234C>A upstream_gene_variant 0.36
rpoC 763157 c.-213G>C upstream_gene_variant 0.32
rpoC 763160 c.-210G>C upstream_gene_variant 0.3
rpoB 763161 p.Leu1119Ile missense_variant 0.29
rpoC 763166 c.-204A>G upstream_gene_variant 0.29
rpoC 763169 c.-201A>G upstream_gene_variant 0.29
rpoB 763170 p.Leu1122Met missense_variant 0.29
rpoC 763468 c.99G>C synonymous_variant 0.24
rpoC 763483 c.114G>C synonymous_variant 0.34
rpoC 763486 c.117T>G synonymous_variant 0.39
rpoC 763504 c.135C>A synonymous_variant 0.58
rpoC 763507 c.138G>C synonymous_variant 0.62
rpoC 763528 c.159G>C synonymous_variant 0.64
rpoC 763531 c.162G>C synonymous_variant 0.63
rpoC 763534 c.165T>C synonymous_variant 0.63
rpoC 763537 c.168C>T synonymous_variant 0.65
rpoC 763546 c.177A>G synonymous_variant 0.65
rpoC 763550 p.Tyr61Ala missense_variant 0.65
rpoC 763570 c.201G>C synonymous_variant 0.71
rpoC 763585 c.216C>G synonymous_variant 0.72
rpoC 763621 c.252C>T synonymous_variant 0.72
rpoC 763633 c.264T>C synonymous_variant 0.68
rpoC 763642 c.273G>C synonymous_variant 0.69
rpoC 763660 c.291T>C synonymous_variant 0.66
rpoC 763666 c.297G>T synonymous_variant 0.65
rpoC 763696 c.327T>C synonymous_variant 0.62
rpoC 763699 c.330G>T synonymous_variant 0.57
rpoC 763708 c.339G>C synonymous_variant 0.49
rpoC 763709 c.340C>T synonymous_variant 0.48
rpoC 763714 c.345G>C synonymous_variant 0.48
rpoC 763717 c.348T>C synonymous_variant 0.47
rpoC 763723 c.354G>C synonymous_variant 0.47
rpoC 763726 c.357C>T synonymous_variant 0.49
rpoC 763729 c.360G>C synonymous_variant 0.51
rpoC 763732 c.363C>G synonymous_variant 0.52
rpoC 763744 c.375G>C synonymous_variant 0.5
rpoC 763751 p.Ile128Val missense_variant 0.46
rpoC 763765 c.396T>C synonymous_variant 0.29
rpoC 763768 c.399C>A synonymous_variant 0.24
rpoC 764455 c.1086G>T synonymous_variant 0.21
rpoC 764458 c.1089G>C synonymous_variant 0.27
rpoC 764461 c.1092A>G synonymous_variant 0.41
rpoC 764491 c.1122G>C synonymous_variant 0.54
rpoC 764498 p.Ser377Ala missense_variant 0.52
rpoC 764503 c.1134G>C synonymous_variant 0.54
rpoC 764507 p.Ala380Ser missense_variant 0.55
rpoC 764521 c.1152T>C synonymous_variant 0.62
rpoC 764524 c.1155C>T synonymous_variant 0.59
rpoC 764527 c.1158C>T synonymous_variant 0.59
rpoC 764533 c.1164C>T synonymous_variant 0.64
rpoC 764536 c.1167G>T synonymous_variant 0.66
rpoC 764542 c.1173C>G synonymous_variant 0.7
rpoC 764548 c.1179G>A synonymous_variant 0.73
rpoC 764560 c.1191T>C synonymous_variant 0.73
rpoC 764575 c.1206T>G synonymous_variant 0.68
rpoC 764578 c.1209C>G synonymous_variant 0.67
rpoC 764581 c.1212T>C synonymous_variant 0.67
rpoC 764582 p.Leu405Met missense_variant 0.68
rpoC 764611 c.1242G>C synonymous_variant 0.68
rpoC 764632 c.1263T>C synonymous_variant 0.61
rpoC 764650 c.1281G>T synonymous_variant 0.58
rpoC 764662 c.1293G>C synonymous_variant 0.56
rpoC 764668 c.1299C>T synonymous_variant 0.46
rpoC 764679 p.Lys437Ser missense_variant 0.36
rpoC 764683 c.1314G>C synonymous_variant 0.34
rpoC 764690 p.Cys441Ala missense_variant 0.29
rpoC 764701 c.1332C>G synonymous_variant 0.42
rpoC 764705 p.Leu446Thr missense_variant 0.43
rpoC 764716 c.1347G>C synonymous_variant 0.6
rpoC 764737 c.1368G>C synonymous_variant 0.61
rpoC 764746 c.1377G>C synonymous_variant 0.61
rpoC 764752 c.1383G>C synonymous_variant 0.59
rpoC 764755 c.1386C>T synonymous_variant 0.59
rpoC 764764 c.1395T>C synonymous_variant 0.6
rpoC 764780 c.1411_1413delAGCinsTCG synonymous_variant 0.62
rpoC 764797 c.1428G>C synonymous_variant 0.65
rpoC 764803 c.1434C>T synonymous_variant 0.62
rpoC 764808 p.Arg480His missense_variant 0.59
rpoC 764812 c.1443C>G synonymous_variant 0.55
rpoC 764815 c.1446A>G synonymous_variant 0.54
rpoC 764824 c.1455T>C synonymous_variant 0.53
rpoC 764843 p.Ala492Thr missense_variant 0.44
rpoC 764848 c.1479G>A synonymous_variant 0.45
rpoC 764858 c.1489_1491delTTGinsCTC synonymous_variant 0.37
rpoC 764863 c.1494G>C synonymous_variant 0.39
rpoC 764875 c.1506C>G synonymous_variant 0.31
rpoC 764935 c.1566T>C synonymous_variant 0.16
rpoC 764948 c.1579_1581delTTGinsCTC synonymous_variant 0.16
rpoC 764956 c.1587T>C synonymous_variant 0.17
rpoC 764957 p.Glu530Ser missense_variant 0.17
rpoC 764968 c.1599T>C synonymous_variant 0.22
rpoC 764998 c.1629G>C synonymous_variant 0.25
rpoC 765007 c.1638T>G synonymous_variant 0.3
rpoC 765008 c.1639T>C synonymous_variant 0.29
rpoC 765014 p.Ala549Pro missense_variant 0.29
rpoC 765019 c.1650A>G synonymous_variant 0.32
rpoC 765034 c.1665T>C synonymous_variant 0.12
rpoC 765923 p.Asn852Ala missense_variant 0.19
rpoC 765926 p.Thr853Ser missense_variant 0.19
rpoC 765937 c.2568T>C synonymous_variant 0.28
rpoC 765940 c.2571A>C synonymous_variant 0.29
rpoC 765947 c.2578_2580delTTGinsCTC synonymous_variant 0.25
rpoC 765958 c.2589C>G synonymous_variant 0.29
rpoC 765962 c.2593T>C synonymous_variant 0.29
rpoC 765967 c.2598C>T synonymous_variant 0.29
rpoC 765973 c.2604C>T synonymous_variant 0.29
rpoC 765994 c.2625A>T synonymous_variant 0.24
rpoC 765997 c.2628T>C synonymous_variant 0.21
rpoC 766000 c.2631G>C synonymous_variant 0.23
rpoC 766003 c.2634G>C synonymous_variant 0.23
rpoC 766012 c.2643C>G synonymous_variant 0.19
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
rpsL 781748 c.189C>G synonymous_variant 0.14
rpsL 781751 c.192G>C synonymous_variant 0.18
rpsL 781760 c.201T>C synonymous_variant 0.32
rpsL 781766 c.207C>T synonymous_variant 0.38
rpsL 781772 c.213C>A synonymous_variant 0.41
rpsL 781796 p.Met79Ile missense_variant 0.4
rpsL 781802 c.243G>C synonymous_variant 0.41
rpsL 781811 c.252C>T synonymous_variant 0.4
rpsL 781817 c.258G>T synonymous_variant 0.41
rpsL 781820 c.261G>C synonymous_variant 0.42
rpsL 781829 c.270G>T synonymous_variant 0.43
rpsL 781832 c.273T>G synonymous_variant 0.43
rpsL 781845 p.Lys96Arg missense_variant 0.35
rpsL 781851 p.Ile98Val missense_variant 0.38
rpsL 781865 c.306G>C synonymous_variant 0.23
rpsL 781868 c.309T>C synonymous_variant 0.17
rpsL 781871 c.312G>C synonymous_variant 0.17
fbiC 1303386 c.460_461dupCG frameshift_variant 0.13
fbiC 1304946 c.2022_2024dupCGA disruptive_inframe_insertion 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472120 n.275G>A non_coding_transcript_exon_variant 0.23
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.36
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.36
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.41
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.39
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.37
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.36
rrs 1472245 n.400C>A non_coding_transcript_exon_variant 0.28
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.29
rrs 1472279 n.434T>G non_coding_transcript_exon_variant 0.17
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.17
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.19
rrs 1472380 n.535G>A non_coding_transcript_exon_variant 0.18
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.11
rrs 1472506 n.661A>T non_coding_transcript_exon_variant 0.15
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.2
rrs 1472572 n.727T>A non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.35
rrs 1472591 n.746G>A non_coding_transcript_exon_variant 0.31
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.28
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.23
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.21
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.22
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.39
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.3
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.26
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.2
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.37
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.36
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.37
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.4
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.46
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.45
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.43
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.42
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.42
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.39
rrs 1473047 n.1202C>T non_coding_transcript_exon_variant 0.42
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.32
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.3
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.26
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.21
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.15
rrs 1473122 n.1278A>T non_coding_transcript_exon_variant 0.16
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.29
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.33
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.34
rrs 1473157 n.1312C>T non_coding_transcript_exon_variant 0.42
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.42
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.42
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.42
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.3
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.24
rrs 1473298 n.1453A>G non_coding_transcript_exon_variant 0.34
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.33
rrs 1473305 n.1460G>T non_coding_transcript_exon_variant 0.36
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.38
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.37
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.37
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.19
rrl 1473833 n.176_177insT non_coding_transcript_exon_variant 0.21
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.15
rrl 1473884 n.227C>T non_coding_transcript_exon_variant 0.15
rrl 1473887 n.230T>G non_coding_transcript_exon_variant 0.17
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.17
rrl 1473889 n.232G>A non_coding_transcript_exon_variant 0.17
rrl 1473898 n.241C>G non_coding_transcript_exon_variant 0.17
rrl 1473899 n.242A>G non_coding_transcript_exon_variant 0.18
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.13
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 0.19
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.25
rrl 1474171 n.514C>G non_coding_transcript_exon_variant 0.25
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.25
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.25
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.25
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 0.25
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.3
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.3
rrl 1474287 n.630T>A non_coding_transcript_exon_variant 0.2
rrl 1474290 n.633T>C non_coding_transcript_exon_variant 0.19
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.14
rrl 1474806 n.1149A>G non_coding_transcript_exon_variant 0.22
rrl 1474822 n.1165G>T non_coding_transcript_exon_variant 0.27
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.3
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.3
rrl 1474905 n.1248T>A non_coding_transcript_exon_variant 0.3
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.15
rrl 1475696 n.2039T>A non_coding_transcript_exon_variant 0.22
rrl 1475697 n.2040C>T non_coding_transcript_exon_variant 0.28
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.22
rrl 1475703 n.2046A>T non_coding_transcript_exon_variant 0.22
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.28
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.44
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.44
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.45
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.45
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.45
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.45
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.34
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.32
rrl 1475963 n.2306G>A non_coding_transcript_exon_variant 0.27
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.21
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.18
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.19
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.14
rrl 1475989 n.2332T>G non_coding_transcript_exon_variant 0.14
rrl 1475990 n.2333G>C non_coding_transcript_exon_variant 0.14
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.14
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.13
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.12
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.19
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.19
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.33
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.32
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.36
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.38
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.36
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.27
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.29
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.36
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.43
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.47
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.47
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.35
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.37
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.35
rrl 1476519 n.2862C>T non_coding_transcript_exon_variant 0.33
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.31
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.31
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.33
rrl 1476534 n.2877A>T non_coding_transcript_exon_variant 0.33
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.33
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.33
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.31
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.3
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.18
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.15
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.14
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.14
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.15
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.15
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.14
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.15
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.15
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.16
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.16
inhA 1673816 c.-386G>A upstream_gene_variant 1.0
rpsA 1833668 p.Ile43Val missense_variant 0.41
rpsA 1833676 c.135A>G synonymous_variant 0.46
rpsA 1833679 c.138G>C synonymous_variant 0.46
rpsA 1833682 c.141C>T synonymous_variant 0.45
rpsA 1833685 c.144G>C synonymous_variant 0.45
rpsA 1833694 c.153G>C synonymous_variant 0.41
rpsA 1833698 p.Leu53Val missense_variant 0.36
rpsA 1833709 c.168C>A synonymous_variant 0.36
rpsA 1833718 c.177C>G synonymous_variant 0.29
rpsA 1834039 c.498C>G synonymous_variant 0.26
rpsA 1834040 p.Lys167Gln missense_variant 0.26
rpsA 1834043 p.Glu168Gln missense_variant 0.26
rpsA 1834046 p.Ile169Val missense_variant 0.29
rpsA 1834054 c.513C>G synonymous_variant 0.26
rpsA 1834069 c.528G>C synonymous_variant 0.24
rpsA 1834090 c.549G>C synonymous_variant 0.26
rpsA 1834093 c.552G>C synonymous_variant 0.24
rpsA 1834096 c.555G>C synonymous_variant 0.23
rpsA 1834099 c.558C>G synonymous_variant 0.23
rpsA 1834102 c.561T>C synonymous_variant 0.23
rpsA 1834114 c.573G>C synonymous_variant 0.24
rpsA 1834189 c.648G>C synonymous_variant 0.21
rpsA 1834210 c.669C>T synonymous_variant 0.27
rpsA 1834213 c.672G>C synonymous_variant 0.27
rpsA 1834222 c.681T>C synonymous_variant 0.26
rpsA 1834228 c.687C>T synonymous_variant 0.23
rpsA 1834234 c.693G>C synonymous_variant 0.24
rpsA 1834240 c.699T>A synonymous_variant 0.24
rpsA 1834243 c.702G>C synonymous_variant 0.24
rpsA 1834249 c.708T>C synonymous_variant 0.26
rpsA 1834255 c.714C>G synonymous_variant 0.23
rpsA 1834261 c.720A>G synonymous_variant 0.21
rpsA 1834264 c.723G>C synonymous_variant 0.21
rpsA 1834279 c.738C>T synonymous_variant 0.2
rpsA 1834327 c.786G>T synonymous_variant 0.41
rpsA 1834348 c.807T>G synonymous_variant 0.41
rpsA 1834354 c.813G>C synonymous_variant 0.41
rpsA 1834357 c.816T>C synonymous_variant 0.4
rpsA 1834361 c.820_822delTTGinsCTC synonymous_variant 0.41
rpsA 1834366 c.825A>G synonymous_variant 0.49
rpsA 1834378 c.837T>G synonymous_variant 0.64
rpsA 1834387 c.846C>T synonymous_variant 0.66
rpsA 1834395 p.Arg285Gln missense_variant 0.68
rpsA 1834408 c.867C>G synonymous_variant 0.67
rpsA 1834411 c.870T>C synonymous_variant 0.65
rpsA 1834416 p.Ala292Val missense_variant 0.66
rpsA 1834423 c.882G>C synonymous_variant 0.71
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 0.74
rpsA 1834468 c.927A>G synonymous_variant 0.7
rpsA 1834474 c.933C>G synonymous_variant 0.66
rpsA 1834486 p.Glu315Asp missense_variant 0.58
rpsA 1834489 c.948T>C synonymous_variant 0.57
rpsA 1834501 c.960G>C synonymous_variant 0.43
rpsA 1834504 c.963G>C synonymous_variant 0.42
rpsA 1834519 c.978G>C synonymous_variant 0.32
rpsA 1834524 p.Glu328Val missense_variant 0.28
rpsA 1834528 c.987T>C synonymous_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.95
katG 2155957 p.Pro52Gln missense_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.17
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
folC 2747671 c.-73C>A upstream_gene_variant 0.11
pepQ 2859477 c.942T>C synonymous_variant 0.2
pepQ 2859870 p.His183Gln missense_variant 0.18
thyX 3067987 c.-42C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449848 p.Asp449Asn missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640913 p.Pro124His missense_variant 0.15
rpoA 3877803 c.705G>C synonymous_variant 0.2
rpoA 3877824 c.684G>A synonymous_variant 0.21
rpoA 3877836 c.672A>G synonymous_variant 0.21
rpoA 3877839 c.669G>T synonymous_variant 0.21
rpoA 3877842 c.666A>C synonymous_variant 0.21
rpoA 3877845 c.663G>C synonymous_variant 0.21
rpoA 3877848 c.660C>A synonymous_variant 0.22
rpoA 3877856 c.652T>C synonymous_variant 0.21
rpoA 3877866 c.642G>C synonymous_variant 0.23
rpoA 3877875 c.633T>G synonymous_variant 0.23
rpoA 3877878 c.630G>T synonymous_variant 0.21
rpoA 3877884 p.Leu208Ile missense_variant 0.18
rpoA 3877887 c.621G>C synonymous_variant 0.16
clpC1 4039714 p.Tyr331His missense_variant 0.28
clpC1 4039724 c.981A>G synonymous_variant 0.33
clpC1 4039733 c.972G>C synonymous_variant 0.34
clpC1 4039736 c.969C>G synonymous_variant 0.34
clpC1 4039739 c.966C>G synonymous_variant 0.34
clpC1 4039742 c.963C>T synonymous_variant 0.35
clpC1 4039751 c.954A>G synonymous_variant 0.39
clpC1 4039754 c.951G>C synonymous_variant 0.41
clpC1 4039757 c.948A>G synonymous_variant 0.41
clpC1 4039766 c.939T>C synonymous_variant 0.42
clpC1 4039773 p.Lys311Met missense_variant 0.42
clpC1 4039778 c.927A>G synonymous_variant 0.39
clpC1 4039781 c.924G>C synonymous_variant 0.39
clpC1 4039790 c.915C>A synonymous_variant 0.32
clpC1 4039802 c.903G>C synonymous_variant 0.23
clpC1 4039808 c.897G>A synonymous_variant 0.17
clpC1 4039875 p.Asn277Arg missense_variant 0.12
clpC1 4039955 c.750G>C synonymous_variant 0.17
clpC1 4039976 p.Lys243Thr missense_variant 0.4
clpC1 4039982 p.Thr241Ile missense_variant 0.4
clpC1 4039991 c.714G>T synonymous_variant 0.52
clpC1 4040002 p.His235Asn missense_variant 0.54
clpC1 4040003 c.702G>C synonymous_variant 0.54
clpC1 4040009 c.696C>G synonymous_variant 0.57
clpC1 4040021 c.684A>T synonymous_variant 0.57
clpC1 4040024 c.681A>G synonymous_variant 0.56
clpC1 4040030 c.675C>G synonymous_variant 0.55
clpC1 4040033 c.672G>C synonymous_variant 0.57
clpC1 4040063 c.642G>C synonymous_variant 0.53
clpC1 4040066 c.639G>T synonymous_variant 0.52
clpC1 4040081 c.624C>G synonymous_variant 0.43
clpC1 4040087 c.618G>C synonymous_variant 0.31
clpC1 4040090 c.615T>C synonymous_variant 0.21
clpC1 4040096 p.Val203Ile missense_variant 0.19
embC 4242075 p.Arg738Gln missense_variant 0.94
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246851 c.342_344dupGTT disruptive_inframe_insertion 0.17
embB 4247358 p.Val282Ala missense_variant 0.74
embB 4249064 c.2554_2555dupGC frameshift_variant 0.12
aftB 4267713 c.1122_1123dupGC frameshift_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0