TB-Profiler result

Run: SRR1062918
Summary

Run ID: SRR1062918

Sample name:

Date: 02-04-2023 18:40:34

Number of reads: 1513049

Percentage reads mapped: 43.1

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 0.33 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
gyrA 7572 p.Ser91Pro missense_variant 0.17 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
gyrA 7581 p.Asp94Asn missense_variant 0.37 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761127 p.Ser441Ala missense_variant 0.12 rifampicin
rpsL 781822 p.Lys88Arg missense_variant 0.17 streptomycin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.51 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 0.4 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 8531 c.1230G>A synonymous_variant 0.17
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490639 c.-144C>G upstream_gene_variant 0.12
fgd1 490689 c.-94C>T upstream_gene_variant 0.2
fgd1 491251 p.Leu157Ile missense_variant 0.2
fgd1 491256 p.Lys158Asn missense_variant 0.2
fgd1 491553 c.771G>A synonymous_variant 0.13
fgd1 491742 c.960T>C synonymous_variant 0.94
mshA 575193 c.-155G>T upstream_gene_variant 0.17
mshA 576588 p.Gly414Glu missense_variant 0.15
ccsA 620697 p.Phe269Leu missense_variant 0.21
ccsA 620823 c.933C>T synonymous_variant 0.17
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761191 p.Ala462Gly missense_variant 0.11
rpoB 761234 c.1428G>C synonymous_variant 0.15
rpoB 761973 p.His723Tyr missense_variant 0.29
rpoB 761980 p.Tyr725Phe missense_variant 0.29
rpoB 761987 c.2181C>T synonymous_variant 0.31
rpoB 761999 c.2193G>C synonymous_variant 0.33
rpoB 762002 c.2196C>G synonymous_variant 0.29
rpoB 762003 p.Asn733Gln missense_variant 0.29
rpoB 762015 p.Glu737Gln missense_variant 0.28
rpoB 762020 p.Glu738Asp missense_variant 0.26
rpoB 762026 c.2220G>C synonymous_variant 0.44
rpoB 762030 p.Thr742Ser missense_variant 0.42
rpoB 762053 c.2247T>C synonymous_variant 0.41
rpoB 762057 p.Ile751Val missense_variant 0.39
rpoB 762062 c.2256T>C synonymous_variant 0.37
rpoB 762065 c.2259T>C synonymous_variant 0.32
rpoB 762080 c.2274G>C synonymous_variant 0.21
rpoB 762086 c.2280G>C synonymous_variant 0.21
rpoB 762185 c.2379G>C synonymous_variant 0.15
rpoB 762194 c.2388G>C synonymous_variant 0.27
rpoB 762233 c.2427G>C synonymous_variant 0.29
rpoB 762245 c.2439G>T synonymous_variant 0.3
rpoB 762251 c.2445G>C synonymous_variant 0.29
rpoB 762254 c.2448T>G synonymous_variant 0.29
rpoB 762257 c.2451C>G synonymous_variant 0.29
rpoB 762273 p.Ala823Ser missense_variant 0.27
rpoB 762278 c.2472C>T synonymous_variant 0.24
rpoB 762284 c.2478G>C synonymous_variant 0.21
rpoB 762293 c.2487T>C synonymous_variant 0.15
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762855 p.Val1017Ile missense_variant 0.21
rpoB 762858 p.Thr1018Ser missense_variant 0.2
rpoC 762863 c.-507T>C upstream_gene_variant 0.19
rpoC 762866 c.-504C>A upstream_gene_variant 0.24
rpoB 762878 p.Ile1024Met missense_variant 0.28
rpoB 762879 p.Met1025Leu missense_variant 0.28
rpoC 762887 c.-483G>C upstream_gene_variant 0.34
rpoC 762896 c.-474G>C upstream_gene_variant 0.43
rpoC 762899 c.-471G>C upstream_gene_variant 0.41
rpoC 762917 c.-453C>G upstream_gene_variant 0.37
rpoC 762923 c.-447C>G upstream_gene_variant 0.38
rpoC 762929 c.-441G>T upstream_gene_variant 0.36
rpoC 762980 c.-390T>C upstream_gene_variant 0.22
rpoC 762983 c.-387C>T upstream_gene_variant 0.16
rpoC 762989 c.-381G>C upstream_gene_variant 0.16
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763094 c.-276G>C upstream_gene_variant 0.19
rpoC 763100 c.-270G>A upstream_gene_variant 0.19
rpoC 763103 c.-267G>C upstream_gene_variant 0.21
rpoB 763122 p.Ile1106Leu missense_variant 0.2
rpoC 763127 c.-243G>C upstream_gene_variant 0.23
rpoB 763130 p.Glu1108Asp missense_variant 0.22
rpoC 763136 c.-234C>A upstream_gene_variant 0.21
rpoC 763157 c.-213G>C upstream_gene_variant 0.2
rpoC 763160 c.-210G>C upstream_gene_variant 0.19
rpoB 763161 p.Leu1119Ile missense_variant 0.18
rpoC 763166 c.-204A>G upstream_gene_variant 0.19
rpoC 763169 c.-201A>G upstream_gene_variant 0.19
rpoB 763170 p.Leu1122Met missense_variant 0.19
rpoC 763468 c.99G>C synonymous_variant 0.17
rpoC 763483 c.114G>C synonymous_variant 0.28
rpoC 763486 c.117T>G synonymous_variant 0.32
rpoC 763504 c.135C>A synonymous_variant 0.41
rpoC 763507 c.138G>C synonymous_variant 0.37
rpoC 763528 c.159G>C synonymous_variant 0.41
rpoC 763531 c.162G>C synonymous_variant 0.43
rpoC 763534 c.165T>C synonymous_variant 0.41
rpoC 763537 c.168C>T synonymous_variant 0.42
rpoC 763546 c.177A>G synonymous_variant 0.44
rpoC 763550 p.Tyr61Ala missense_variant 0.42
rpoC 763570 c.201G>C synonymous_variant 0.48
rpoC 763585 c.216C>G synonymous_variant 0.52
rpoC 763621 c.252C>T synonymous_variant 0.57
rpoC 763633 c.264T>C synonymous_variant 0.56
rpoC 763642 c.273G>C synonymous_variant 0.58
rpoC 763660 c.291T>C synonymous_variant 0.53
rpoC 763666 c.297G>T synonymous_variant 0.58
rpoC 763696 c.327T>C synonymous_variant 0.44
rpoC 763699 c.330G>T synonymous_variant 0.44
rpoC 763708 c.339G>C synonymous_variant 0.3
rpoC 763709 c.340C>T synonymous_variant 0.29
rpoC 763714 c.345G>C synonymous_variant 0.3
rpoC 763717 c.348T>C synonymous_variant 0.3
rpoC 763723 c.354G>C synonymous_variant 0.32
rpoC 763726 c.357C>T synonymous_variant 0.39
rpoC 763729 c.360G>C synonymous_variant 0.32
rpoC 763732 c.363C>G synonymous_variant 0.32
rpoC 763744 c.375G>C synonymous_variant 0.31
rpoC 763751 p.Ile128Val missense_variant 0.32
rpoC 763765 c.396T>C synonymous_variant 0.19
rpoC 763926 p.Ala186Asp missense_variant 0.2
rpoC 764446 p.Asp359Glu missense_variant 0.12
rpoC 764491 c.1122G>C synonymous_variant 0.26
rpoC 764498 p.Ser377Ala missense_variant 0.23
rpoC 764503 c.1134G>C synonymous_variant 0.24
rpoC 764507 p.Ala380Ser missense_variant 0.25
rpoC 764521 c.1152T>C synonymous_variant 0.37
rpoC 764524 c.1155C>T synonymous_variant 0.41
rpoC 764527 c.1158C>T synonymous_variant 0.37
rpoC 764533 c.1164C>T synonymous_variant 0.42
rpoC 764536 c.1167G>T synonymous_variant 0.43
rpoC 764542 c.1173C>G synonymous_variant 0.48
rpoC 764548 c.1179G>A synonymous_variant 0.49
rpoC 764560 c.1191T>C synonymous_variant 0.59
rpoC 764575 c.1206T>G synonymous_variant 0.53
rpoC 764578 c.1209C>G synonymous_variant 0.53
rpoC 764581 c.1212T>C synonymous_variant 0.52
rpoC 764582 p.Leu405Met missense_variant 0.52
rpoC 764611 c.1242G>C synonymous_variant 0.52
rpoC 764632 c.1263T>C synonymous_variant 0.38
rpoC 764650 c.1281G>T synonymous_variant 0.42
rpoC 764662 c.1293G>C synonymous_variant 0.42
rpoC 764668 c.1299C>T synonymous_variant 0.4
rpoC 764679 p.Lys437Ser missense_variant 0.33
rpoC 764683 c.1314G>C synonymous_variant 0.34
rpoC 764690 p.Cys441Ala missense_variant 0.4
rpoC 764701 c.1332C>G synonymous_variant 0.45
rpoC 764705 p.Leu446Thr missense_variant 0.42
rpoC 764716 c.1347G>C synonymous_variant 0.51
rpoC 764737 c.1368G>C synonymous_variant 0.4
rpoC 764746 c.1377G>C synonymous_variant 0.35
rpoC 764752 c.1383G>C synonymous_variant 0.31
rpoC 764755 c.1386C>T synonymous_variant 0.3
rpoC 764764 c.1395T>C synonymous_variant 0.31
rpoC 764780 c.1411_1413delAGCinsTCG synonymous_variant 0.28
rpoC 764797 c.1428G>C synonymous_variant 0.38
rpoC 764803 c.1434C>T synonymous_variant 0.31
rpoC 764808 p.Arg480His missense_variant 0.27
rpoC 764812 c.1443C>G synonymous_variant 0.19
rpoC 764815 c.1446A>G synonymous_variant 0.19
rpoC 764863 c.1494G>A synonymous_variant 0.18
rpoC 764935 c.1566T>C synonymous_variant 0.13
rpoC 764948 c.1579_1581delTTGinsCTC synonymous_variant 0.23
rpoC 764956 c.1587T>C synonymous_variant 0.23
rpoC 764957 p.Glu530Ser missense_variant 0.23
rpoC 764968 c.1599T>C synonymous_variant 0.28
rpoC 764998 c.1629G>C synonymous_variant 0.32
rpoC 765007 c.1638T>G synonymous_variant 0.32
rpoC 765008 c.1639T>C synonymous_variant 0.33
rpoC 765014 p.Ala549Pro missense_variant 0.35
rpoC 765019 c.1650A>G synonymous_variant 0.33
rpoC 765034 c.1665T>C synonymous_variant 0.17
rpoC 765250 c.1881G>A synonymous_variant 0.14
rpoC 765902 p.Thr845Ser missense_variant 0.26
rpoC 765910 c.2541G>C synonymous_variant 0.29
rpoC 765923 p.Asn852Ala missense_variant 0.41
rpoC 765926 p.Thr853Ser missense_variant 0.44
rpoC 765937 c.2568T>C synonymous_variant 0.39
rpoC 765940 c.2571A>C synonymous_variant 0.39
rpoC 765947 c.2578_2580delTTGinsCTC synonymous_variant 0.37
rpoC 765958 c.2589C>G synonymous_variant 0.37
rpoC 765962 c.2593T>C synonymous_variant 0.32
rpoC 765967 c.2598C>T synonymous_variant 0.29
rpoC 765973 c.2604C>T synonymous_variant 0.3
rpoC 765994 c.2625A>T synonymous_variant 0.18
rpoC 765997 c.2628T>C synonymous_variant 0.16
rpoC 766141 c.2772C>G synonymous_variant 0.22
rpoC 766480 c.3111C>G synonymous_variant 0.11
rpoC 766571 p.Pro1068Ser missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.96
mmpL5 777673 p.Ala270Thr missense_variant 0.2
mmpL5 777701 c.780C>A synonymous_variant 0.17
mmpL5 778241 p.Lys80Asn missense_variant 0.18
mmpL5 778360 p.Val41Leu missense_variant 0.14
mmpL5 778426 p.Ala19Ser missense_variant 0.14
mmpS5 779516 c.-611C>A upstream_gene_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781796 p.Met79Ile missense_variant 0.17
rpsL 781802 c.243G>C synonymous_variant 0.15
rpsL 781817 c.258G>T synonymous_variant 0.16
rpsL 781820 c.261G>C synonymous_variant 0.16
rpsL 781829 c.270G>T synonymous_variant 0.17
rpsL 781832 c.273T>G synonymous_variant 0.17
rplC 801285 c.477G>C synonymous_variant 0.11
fbiC 1303077 c.147C>T synonymous_variant 0.18
fbiC 1303553 p.Ala208Glu missense_variant 0.17
fbiC 1303720 p.Gly264Cys missense_variant 0.15
fbiC 1304463 c.1533C>T synonymous_variant 0.18
fbiC 1304540 p.Arg537Pro missense_variant 0.13
fbiC 1304976 c.2046G>A synonymous_variant 0.25
Rv1258c 1406143 c.1198C>T synonymous_variant 0.17
embR 1416930 p.Ala140Ser missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472092 n.247C>T non_coding_transcript_exon_variant 0.15
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.15
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.16
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.16
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.16
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.18
rrs 1472120 n.275G>A non_coding_transcript_exon_variant 0.21
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.31
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.33
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.43
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.56
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.54
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.5
rrs 1472245 n.400C>A non_coding_transcript_exon_variant 0.5
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.47
rrs 1472279 n.434T>G non_coding_transcript_exon_variant 0.32
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.21
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.21
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.19
rrs 1472427 n.582T>G non_coding_transcript_exon_variant 0.2
rrs 1472431 n.586G>A non_coding_transcript_exon_variant 0.14
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.15
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.33
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.42
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.44
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.47
rrs 1472506 n.661A>T non_coding_transcript_exon_variant 0.54
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.65
rrs 1472572 n.727T>A non_coding_transcript_exon_variant 0.74
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.69
rrs 1472591 n.746G>A non_coding_transcript_exon_variant 0.71
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.61
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.43
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.35
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.24
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.27
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.38
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.36
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.14
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.14
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.39
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.54
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.53
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.53
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.53
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.58
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.51
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.51
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.49
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.49
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.39
rrs 1473047 n.1202C>T non_coding_transcript_exon_variant 0.35
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.29
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.22
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.22
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.37
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.38
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.5
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.67
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.66
rrs 1473157 n.1312C>T non_coding_transcript_exon_variant 0.68
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.7
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.7
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.7
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.61
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.39
rrs 1473298 n.1453A>G non_coding_transcript_exon_variant 0.41
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.41
rrs 1473305 n.1460G>T non_coding_transcript_exon_variant 0.4
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.4
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.4
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.41
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.17
rrl 1473833 n.176_177insT non_coding_transcript_exon_variant 0.22
rrl 1473898 n.241C>G non_coding_transcript_exon_variant 0.11
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.18
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 0.19
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.31
rrl 1474171 n.514C>G non_coding_transcript_exon_variant 0.34
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.36
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.38
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.39
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 0.53
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.45
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.41
rrl 1474287 n.630T>A non_coding_transcript_exon_variant 0.29
rrl 1474290 n.633T>C non_coding_transcript_exon_variant 0.14
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.38
rrl 1474351 n.694G>C non_coding_transcript_exon_variant 0.38
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.38
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.38
rrl 1474355 n.698A>G non_coding_transcript_exon_variant 0.38
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.4
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.36
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.36
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.25
rrl 1474402 n.745T>C non_coding_transcript_exon_variant 0.23
rrl 1474406 n.749T>C non_coding_transcript_exon_variant 0.23
rrl 1474520 n.863A>C non_coding_transcript_exon_variant 0.16
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.14
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.14
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.14
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.14
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.18
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.26
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.36
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.37
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.35
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.37
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.38
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.33
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.34
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.3
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.3
rrl 1474692 n.1035G>A non_coding_transcript_exon_variant 0.27
rrl 1474694 n.1037C>T non_coding_transcript_exon_variant 0.24
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.14
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.41
rrl 1474806 n.1149A>G non_coding_transcript_exon_variant 0.53
rrl 1474822 n.1165G>T non_coding_transcript_exon_variant 0.57
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.58
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.61
rrl 1474905 n.1248T>A non_coding_transcript_exon_variant 0.56
rrl 1474927 n.1271delC non_coding_transcript_exon_variant 0.33
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.22
rrl 1474985 n.1328C>A non_coding_transcript_exon_variant 0.14
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 0.2
rrl 1475109 n.1452C>T non_coding_transcript_exon_variant 0.19
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.2
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.2
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 0.2
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.2
rrl 1475175 n.1518G>C non_coding_transcript_exon_variant 0.18
rrl 1475176 n.1519G>A non_coding_transcript_exon_variant 0.18
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.19
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.33
rrl 1475696 n.2039T>A non_coding_transcript_exon_variant 0.52
rrl 1475697 n.2040C>T non_coding_transcript_exon_variant 0.55
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.55
rrl 1475703 n.2046A>T non_coding_transcript_exon_variant 0.55
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.68
rrl 1475764 n.2107A>T non_coding_transcript_exon_variant 0.18
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.18
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.85
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.85
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 0.83
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.81
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.76
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.71
rrl 1475963 n.2306G>A non_coding_transcript_exon_variant 0.66
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.47
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.45
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.45
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.26
rrl 1475989 n.2332T>G non_coding_transcript_exon_variant 0.26
rrl 1475990 n.2333G>C non_coding_transcript_exon_variant 0.26
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.23
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.23
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.14
rrl 1476105 n.2450delA non_coding_transcript_exon_variant 0.18
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.33
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.48
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.5
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.62
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.62
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.63
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.53
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.54
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.49
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.41
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.19
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.46
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.62
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.69
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.78
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.75
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.73
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.75
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.72
rrl 1476519 n.2862C>T non_coding_transcript_exon_variant 0.72
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.68
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.68
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.7
rrl 1476534 n.2877A>T non_coding_transcript_exon_variant 0.68
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.66
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.66
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.67
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.75
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.34
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.33
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.2
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.17
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.15
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.15
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.15
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.16
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.15
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.16
fabG1 1673582 p.Gly48Val missense_variant 0.14
inhA 1673816 c.-386G>A upstream_gene_variant 1.0
inhA 1674861 c.660G>A synonymous_variant 0.17
rpsA 1833668 p.Ile43Val missense_variant 0.25
rpsA 1833676 c.135A>G synonymous_variant 0.26
rpsA 1833679 c.138G>C synonymous_variant 0.28
rpsA 1833682 c.141C>T synonymous_variant 0.29
rpsA 1833685 c.144G>C synonymous_variant 0.27
rpsA 1833694 c.153G>C synonymous_variant 0.26
rpsA 1833698 p.Leu53Val missense_variant 0.25
rpsA 1833709 c.168C>A synonymous_variant 0.27
rpsA 1833718 c.177C>G synonymous_variant 0.29
rpsA 1833919 c.378C>T synonymous_variant 0.14
rpsA 1833928 c.387G>C synonymous_variant 0.13
rpsA 1833940 c.399C>T synonymous_variant 0.15
rpsA 1833949 c.408T>C synonymous_variant 0.13
rpsA 1834303 c.762T>C synonymous_variant 0.15
rpsA 1834327 c.786G>T synonymous_variant 0.32
rpsA 1834348 c.807T>G synonymous_variant 0.33
rpsA 1834354 c.813G>C synonymous_variant 0.33
rpsA 1834357 c.816T>C synonymous_variant 0.37
rpsA 1834361 c.820_822delTTGinsCTC synonymous_variant 0.33
rpsA 1834366 c.825A>G synonymous_variant 0.33
rpsA 1834378 c.837T>G synonymous_variant 0.43
rpsA 1834387 c.846C>T synonymous_variant 0.52
rpsA 1834395 p.Arg285Gln missense_variant 0.46
rpsA 1834408 c.867C>G synonymous_variant 0.35
rpsA 1834411 c.870T>C synonymous_variant 0.32
rpsA 1834416 p.Ala292Val missense_variant 0.32
rpsA 1834423 c.882G>C synonymous_variant 0.36
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 0.35
rpsA 1834468 c.927A>G synonymous_variant 0.3
rpsA 1834474 c.933C>G synonymous_variant 0.28
rpsA 1834486 p.Glu315Asp missense_variant 0.24
rpsA 1834489 c.948T>C synonymous_variant 0.23
rpsA 1834501 c.960G>C synonymous_variant 0.17
rpsA 1834504 c.963G>C synonymous_variant 0.17
rpsA 1834519 c.978G>C synonymous_variant 0.13
tlyA 1917745 c.-195G>A upstream_gene_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102073 p.Ala324Ser missense_variant 0.2
ndh 2102289 p.Val252Leu missense_variant 0.25
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155262 p.Val284Leu missense_variant 0.18
katG 2155758 c.354C>A synonymous_variant 0.22
katG 2156016 c.96C>A synonymous_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.95
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518723 p.Glu203Asp missense_variant 0.12
kasA 2518895 p.Pro261Ser missense_variant 0.29
kasA 2518959 p.Ala282Gly missense_variant 0.13
kasA 2519047 c.933C>T synonymous_variant 0.15
eis 2715359 c.-27C>T upstream_gene_variant 0.14
ahpC 2726105 c.-88G>A upstream_gene_variant 0.97
folC 2746682 p.Leu306Pro missense_variant 0.13
folC 2746756 c.843C>T synonymous_variant 0.15
folC 2747208 p.Val131Leu missense_variant 0.18
folC 2747714 c.-116G>T upstream_gene_variant 0.25
pepQ 2859494 p.Gly309Trp missense_variant 0.18
pepQ 2859565 p.Gly285Asp missense_variant 0.18
pepQ 2859925 p.Pro165Leu missense_variant 0.22
ribD 2987598 p.Arg254Cys missense_variant 0.15
Rv2752c 3065699 p.Ile165Val missense_variant 0.12
thyX 3067987 c.-42C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339106 c.-12C>A upstream_gene_variant 0.14
Rv3083 3448445 c.-59G>T upstream_gene_variant 0.16
Rv3083 3449079 c.576G>A synonymous_variant 0.17
Rv3083 3449340 c.837C>T synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475161 c.1155T>C synonymous_variant 0.12
fprA 3475266 c.1260G>C synonymous_variant 0.2
fprA 3475304 p.Ala433Gly missense_variant 0.33
whiB7 3568469 p.Phe71Ile missense_variant 0.14
Rv3236c 3612006 p.Arg371Gly missense_variant 0.13
fbiA 3640720 p.Pro60Thr missense_variant 0.15
fbiB 3640914 c.-621C>G upstream_gene_variant 0.12
fbiA 3641443 p.Val301Met missense_variant 0.13
fbiB 3641511 c.-24G>C upstream_gene_variant 0.17
fbiB 3641651 p.Trp39* stop_gained 0.13
alr 3840734 c.687C>T synonymous_variant 0.17
alr 3840745 p.Gly226Trp missense_variant 0.22
alr 3840783 c.637delC frameshift_variant 0.29
alr 3841256 p.His55Gln missense_variant 0.15
rpoA 3877803 c.705G>C synonymous_variant 0.13
rpoA 3878655 c.-148C>G upstream_gene_variant 0.12
clpC1 4038202 p.Ala835Pro missense_variant 0.14
clpC1 4038220 p.Glu829Lys missense_variant 0.14
clpC1 4038235 p.Arg824Ser missense_variant 0.14
clpC1 4038884 c.1821C>A synonymous_variant 0.18
clpC1 4039480 p.Arg409Trp missense_variant 0.29
clpC1 4039781 c.924G>C synonymous_variant 0.17
clpC1 4039802 c.903G>C synonymous_variant 0.16
clpC1 4039808 c.897G>A synonymous_variant 0.16
clpC1 4039838 c.867G>C synonymous_variant 0.11
clpC1 4039850 c.855T>C synonymous_variant 0.12
clpC1 4039976 p.Lys243Thr missense_variant 0.25
clpC1 4039982 p.Thr241Ile missense_variant 0.21
clpC1 4039991 c.714G>T synonymous_variant 0.35
clpC1 4040002 p.His235Asn missense_variant 0.38
clpC1 4040003 c.702G>C synonymous_variant 0.39
clpC1 4040009 c.696C>G synonymous_variant 0.42
clpC1 4040021 c.684A>T synonymous_variant 0.47
clpC1 4040024 c.681A>G synonymous_variant 0.49
clpC1 4040030 c.675C>G synonymous_variant 0.54
clpC1 4040033 c.672G>C synonymous_variant 0.54
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 0.54
clpC1 4040087 c.618G>C synonymous_variant 0.27
clpC1 4040090 c.615T>C synonymous_variant 0.29
embC 4239979 c.117A>T synonymous_variant 0.17
embC 4240949 p.Val363Ile missense_variant 0.14
embC 4241381 p.Gly507Arg missense_variant 0.15
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242162 p.Ala767Glu missense_variant 0.17
embC 4242471 p.Arg870Leu missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243203 c.-30C>T upstream_gene_variant 0.17
embA 4243383 p.Ala51Thr missense_variant 0.15
embA 4243703 c.471C>T synonymous_variant 0.17
embA 4245079 p.Trp616* stop_gained 0.15
embB 4245563 c.-951G>A upstream_gene_variant 0.15
embA 4245678 p.Lys816Glu missense_variant 0.12
embA 4245784 p.Thr851Met missense_variant 0.14
embB 4246271 c.-243G>A upstream_gene_variant 0.23
embB 4246654 c.141G>A synonymous_variant 0.2
embB 4247260 c.747C>A synonymous_variant 0.17
embB 4247332 p.Trp273* stop_gained 0.15
embB 4247358 p.Val282Ala missense_variant 0.64
embB 4248401 p.Ala630Thr missense_variant 0.14
aftB 4267363 p.Gly492Ser missense_variant 0.14
aftB 4267387 p.His484Tyr missense_variant 0.2
aftB 4268536 p.Gly101Trp missense_variant 0.15
aftB 4268720 c.117C>G synonymous_variant 0.12
ubiA 4269017 p.Glu273Lys missense_variant 0.2
ubiA 4269094 p.Trp247Leu missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407987 c.216C>T synonymous_variant 0.15
gid 4408019 p.Gly62Arg missense_variant 0.13