TB-Profiler result

Run: SRR1173687
Summary

Run ID: SRR1173687

Sample name:

Date: 03-04-2023 03:30:07

Number of reads: 879994

Percentage reads mapped: 36.95

Strain: lineage2.2.1

Drug-resistance: Pre-XDR-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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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
gyrA 7581 p.Asp94Tyr missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761116 p.Asn437Thr missense_variant 0.28 rifampicin
rpoB 761127 p.Ser441Ala missense_variant 0.27 rifampicin
rpoB 761155 p.Ser450Leu missense_variant 0.56 rifampicin
rpoB 761196 p.Leu464Met missense_variant 0.21 rifampicin
rpoC 764822 p.Asp485Asn missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
rrs 1473246 n.1401A>G non_coding_transcript_exon_variant 0.25 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2155109 p.Ile335Val missense_variant 1.0 isoniazid
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2289016 p.Thr76Pro missense_variant 1.0 pyrazinamide
embB 4248003 p.Gln497Arg missense_variant 1.0 ethambutol
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 7355 c.54T>C synonymous_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7394 c.93T>C synonymous_variant 0.38
gyrA 7406 c.105G>C synonymous_variant 0.33
gyrA 7418 c.117C>G synonymous_variant 0.21
gyrA 7421 c.120G>C synonymous_variant 0.15
gyrA 7427 c.126G>C synonymous_variant 0.15
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490847 p.Glu22Ala missense_variant 0.22
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576148 c.801G>T synonymous_variant 0.15
rpoB 760415 c.609C>T synonymous_variant 0.12
rpoB 760424 c.618C>T synonymous_variant 0.12
rpoB 760430 c.624T>C synonymous_variant 0.11
rpoB 760451 c.645C>G synonymous_variant 0.19
rpoB 760460 c.654G>C synonymous_variant 0.17
rpoB 760475 c.669A>G synonymous_variant 0.17
rpoB 760481 c.675G>C synonymous_variant 0.19
rpoB 760484 c.678A>G synonymous_variant 0.19
rpoB 760946 c.1140A>G synonymous_variant 0.13
rpoB 760965 p.Met387Leu missense_variant 0.13
rpoB 760970 c.1164G>C synonymous_variant 0.13
rpoB 760973 c.1167G>C synonymous_variant 0.13
rpoB 760982 c.1176G>C synonymous_variant 0.28
rpoB 760991 c.1185G>C synonymous_variant 0.3
rpoB 761003 c.1197C>G synonymous_variant 0.33
rpoB 761015 c.1209G>C synonymous_variant 0.29
rpoB 761027 c.1221A>G synonymous_variant 0.33
rpoB 761036 c.1230G>C synonymous_variant 0.28
rpoB 761037 c.1231T>C synonymous_variant 0.28
rpoB 761057 c.1251G>C synonymous_variant 0.27
rpoB 761064 p.Ala420Ser missense_variant 0.25
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.2
rpoB 761102 c.1296A>G synonymous_variant 0.22
rpoB 761126 c.1320G>C synonymous_variant 0.27
rpoB 761132 c.1326G>C synonymous_variant 0.29
rpoB 761133 c.1327T>C synonymous_variant 0.29
rpoB 761150 c.1344A>C synonymous_variant 0.39
rpoB 761165 c.1359G>C synonymous_variant 0.47
rpoB 761168 c.1362C>G synonymous_variant 0.47
rpoB 761180 c.1374A>G synonymous_variant 0.33
rpoB 761189 c.1383T>C synonymous_variant 0.28
rpoB 761195 c.1389G>C synonymous_variant 0.22
rpoB 761221 p.Ser472Cys missense_variant 0.12
rpoB 761627 c.1821C>T synonymous_variant 0.12
rpoB 761633 c.1827G>C synonymous_variant 0.12
rpoB 761636 c.1830G>C synonymous_variant 0.12
rpoB 761643 p.Val613Leu missense_variant 0.11
rpoB 761648 c.1842T>C synonymous_variant 0.11
rpoB 761657 c.1851C>G synonymous_variant 0.18
rpoB 761666 c.1860G>C synonymous_variant 0.17
rpoB 761675 c.1869G>C synonymous_variant 0.19
rpoB 761694 p.Ile630Val missense_variant 0.11
rpoB 762879 p.Met1025Leu missense_variant 0.11
rpoB 762889 p.His1028Leu missense_variant 0.13
rpoC 762899 c.-471G>C upstream_gene_variant 0.18
rpoC 762920 c.-450C>G upstream_gene_variant 0.32
rpoC 762923 c.-447C>G upstream_gene_variant 0.35
rpoC 762929 c.-441G>C upstream_gene_variant 0.3
rpoC 762947 c.-423C>G upstream_gene_variant 0.33
rpoC 762962 c.-408C>T upstream_gene_variant 0.45
rpoC 762989 c.-381G>C upstream_gene_variant 0.56
rpoC 762995 c.-375G>T upstream_gene_variant 0.4
rpoC 763013 c.-357C>G upstream_gene_variant 0.4
rpoC 763028 c.-342T>C upstream_gene_variant 0.29
rpoC 763031 c.-339T>G upstream_gene_variant 1.0
rpoB 763038 p.Thr1078Ala missense_variant 0.28
rpoC 763053 c.-317_-315delTTGinsCTC upstream_gene_variant 0.12
rpoC 763070 c.-300T>C upstream_gene_variant 0.11
rpoC 763115 c.-255T>C upstream_gene_variant 0.45
rpoC 763127 c.-243G>C upstream_gene_variant 0.42
rpoC 763142 c.-228C>G upstream_gene_variant 0.3
rpoC 763158 c.-212C>T upstream_gene_variant 0.32
rpoC 763166 c.-204A>G upstream_gene_variant 0.14
rpoC 763169 c.-201A>G upstream_gene_variant 0.15
rpoC 763172 c.-198G>C upstream_gene_variant 0.13
rpoC 763504 c.135C>T synonymous_variant 0.18
rpoC 763507 c.138G>C synonymous_variant 0.18
rpoC 763528 c.159G>T synonymous_variant 0.2
rpoC 763531 c.162G>C synonymous_variant 0.2
rpoC 763534 c.165T>C synonymous_variant 0.19
rpoC 763537 c.168C>G synonymous_variant 0.19
rpoC 763546 c.177A>G synonymous_variant 0.16
rpoC 763570 c.201G>T synonymous_variant 0.2
rpoC 763573 c.204G>C synonymous_variant 0.21
rpoC 763615 c.246G>C synonymous_variant 0.25
rpoC 763660 c.291T>G synonymous_variant 0.15
rpoC 763669 c.300C>G synonymous_variant 0.15
rpoC 763686 p.Tyr106Phe missense_variant 0.22
rpoC 763696 c.327T>C synonymous_variant 0.13
rpoC 763714 c.345G>C synonymous_variant 0.13
rpoC 763717 c.348T>C synonymous_variant 0.14
rpoC 763744 c.375G>C synonymous_variant 0.12
rpoC 763765 c.396T>G synonymous_variant 0.13
rpoC 763940 p.Ala191Ser missense_variant 0.11
rpoC 764263 c.894G>C synonymous_variant 0.17
rpoC 764266 c.897T>C synonymous_variant 0.14
rpoC 764278 c.909A>G synonymous_variant 0.12
rpoC 764282 p.Ser305Thr missense_variant 0.12
rpoC 764285 p.Gly306Arg missense_variant 0.12
rpoC 764491 c.1122G>C synonymous_variant 0.18
rpoC 764497 c.1128A>G synonymous_variant 0.2
rpoC 764521 c.1152T>C synonymous_variant 0.17
rpoC 764527 c.1158C>T synonymous_variant 0.21
rpoC 764539 c.1170C>G synonymous_variant 0.19
rpoC 764563 c.1194G>C synonymous_variant 0.12
rpoC 764566 c.1197C>G synonymous_variant 0.12
rpoC 764572 c.1203G>C synonymous_variant 0.13
rpoC 764575 c.1206T>G synonymous_variant 0.13
rpoC 764577 p.Ser403Cys missense_variant 0.12
rpoC 764581 c.1212T>C synonymous_variant 0.12
rpoC 764611 c.1242G>C synonymous_variant 0.15
rpoC 764650 c.1281G>T synonymous_variant 0.21
rpoC 764662 c.1293G>C synonymous_variant 0.42
rpoC 764677 c.1308C>G synonymous_variant 0.42
rpoC 764706 p.Leu446Gln missense_variant 0.31
rpoC 764722 c.1353G>C synonymous_variant 0.24
rpoC 764731 c.1362G>C synonymous_variant 0.22
rpoC 764737 c.1368G>C synonymous_variant 0.14
rpoC 764752 c.1383G>C synonymous_variant 0.16
rpoC 764764 c.1395T>C synonymous_variant 0.12
rpoC 765923 p.Asn852Ser missense_variant 0.17
rpoC 765928 c.2559C>G synonymous_variant 0.17
rpoC 765937 c.2568T>C synonymous_variant 0.18
rpoC 765940 c.2571A>C synonymous_variant 0.2
rpoC 765947 c.2578_2580delTTGinsCTC synonymous_variant 0.22
rpoC 765962 c.2593T>C synonymous_variant 0.18
rpoC 765967 c.2598C>G synonymous_variant 0.17
rpoC 766763 p.Ile1132Leu missense_variant 0.19
rpoC 766774 c.3405T>C synonymous_variant 0.26
rpoC 766798 c.3429C>G synonymous_variant 0.38
rpoC 766799 p.Ala1144Ser missense_variant 0.38
rpoC 766804 c.3435A>G synonymous_variant 0.42
rpoC 766841 p.Val1158Ile missense_variant 0.39
rpoC 766856 c.3487_3489delCGCinsAGG synonymous_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781760 c.201T>C synonymous_variant 0.22
rpsL 781768 p.Glu70Val missense_variant 0.23
rpsL 781802 c.243G>C synonymous_variant 0.18
rpsL 781808 c.249C>T synonymous_variant 0.19
rpsL 781814 c.255C>T synonymous_variant 0.2
rpsL 781817 c.258G>T synonymous_variant 0.13
rplC 800715 c.-94A>C upstream_gene_variant 0.18
fbiC 1302917 c.-14_-13insA upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.33
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.76
rrs 1472107 n.262A>G non_coding_transcript_exon_variant 0.72
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.72
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.75
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.69
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.75
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.74
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.75
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.55
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.5
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.19
rrs 1472481 n.636G>A non_coding_transcript_exon_variant 0.21
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.28
rrs 1472495 n.650C>T non_coding_transcript_exon_variant 0.28
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.55
rrs 1472582 n.737G>A non_coding_transcript_exon_variant 0.56
rrs 1472583 n.738T>C non_coding_transcript_exon_variant 0.55
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.36
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.35
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.31
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.29
rrs 1472674 n.829T>C non_coding_transcript_exon_variant 0.27
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.27
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.27
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.27
rrs 1472685 n.840G>A non_coding_transcript_exon_variant 0.27
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.27
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.58
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.59
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.59
rrs 1472791 n.946G>T non_coding_transcript_exon_variant 0.48
rrs 1472793 n.948A>C non_coding_transcript_exon_variant 0.48
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.12
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.14
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.57
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.57
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.59
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.59
rrs 1472973 n.1128A>C non_coding_transcript_exon_variant 0.55
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.41
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.41
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.4
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.54
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.62
rrs 1473062 n.1217T>G non_coding_transcript_exon_variant 0.66
rrs 1473065 n.1220C>A non_coding_transcript_exon_variant 0.69
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.71
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.78
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.78
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.76
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.76
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.63
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.6
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.6
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.74
rrs 1473266 n.1421A>G non_coding_transcript_exon_variant 0.68
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.67
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.73
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.53
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.53
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.67
rrs 1473310 n.1465T>C non_coding_transcript_exon_variant 0.7
rrl 1473691 n.34T>G non_coding_transcript_exon_variant 0.12
rrl 1473717 n.60G>A non_coding_transcript_exon_variant 0.29
rrl 1473731 n.74T>A non_coding_transcript_exon_variant 0.43
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.46
rrl 1473782 n.125A>G non_coding_transcript_exon_variant 0.33
rrl 1473788 n.131A>C non_coding_transcript_exon_variant 0.18
rrl 1473793 n.136G>C non_coding_transcript_exon_variant 0.12
rrl 1473844 n.187C>T non_coding_transcript_exon_variant 0.15
rrl 1473870 n.213G>A non_coding_transcript_exon_variant 0.22
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.22
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.22
rrl 1473887 n.230T>C non_coding_transcript_exon_variant 0.25
rrl 1473888 n.231T>C non_coding_transcript_exon_variant 0.25
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.24
rrl 1473899 n.242A>G non_coding_transcript_exon_variant 0.22
rrl 1473916 n.259C>A non_coding_transcript_exon_variant 0.29
rrl 1474166 n.509G>C non_coding_transcript_exon_variant 0.4
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.42
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.44
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.44
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.42
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.55
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.59
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.62
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.61
rrl 1474275 n.618T>G non_coding_transcript_exon_variant 0.25
rrl 1474280 n.623C>G non_coding_transcript_exon_variant 0.2
rrl 1474317 n.660G>T non_coding_transcript_exon_variant 0.25
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.5
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.5
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.5
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.5
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.21
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.54
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.5
rrl 1474376 n.719T>G non_coding_transcript_exon_variant 0.46
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.42
rrl 1474402 n.745T>C non_coding_transcript_exon_variant 0.36
rrl 1474406 n.749T>C non_coding_transcript_exon_variant 0.27
rrl 1474465 n.808G>C non_coding_transcript_exon_variant 0.12
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.48
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.5
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.6
rrl 1474584 n.927C>G non_coding_transcript_exon_variant 0.64
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.29
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.21
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.21
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.21
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.21
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.21
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.21
rrl 1474651 n.995delT non_coding_transcript_exon_variant 0.35
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.38
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.39
rrl 1474692 n.1035G>A non_coding_transcript_exon_variant 0.25
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.18
rrl 1474740 n.1083G>C non_coding_transcript_exon_variant 0.18
rrl 1474747 n.1090C>G non_coding_transcript_exon_variant 0.12
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.19
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.31
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.39
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.41
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.41
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.32
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.35
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.5
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.8
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.8
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.78
rrl 1475066 n.1409C>G non_coding_transcript_exon_variant 0.46
rrl 1475067 n.1410A>G non_coding_transcript_exon_variant 0.46
rrl 1475076 n.1419C>A non_coding_transcript_exon_variant 0.5
rrl 1475079 n.1422T>C non_coding_transcript_exon_variant 0.5
rrl 1475080 n.1423G>C non_coding_transcript_exon_variant 0.5
rrl 1475088 n.1431A>G non_coding_transcript_exon_variant 0.65
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.77
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.77
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.29
rrl 1475508 n.1851A>T non_coding_transcript_exon_variant 0.33
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.41
rrl 1475538 n.1881T>A non_coding_transcript_exon_variant 0.41
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.44
rrl 1475544 n.1887A>C non_coding_transcript_exon_variant 0.47
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.47
rrl 1475550 n.1893A>G non_coding_transcript_exon_variant 0.47
rrl 1475649 n.1992A>G non_coding_transcript_exon_variant 0.2
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.19
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.26
rrl 1475740 n.2083G>C non_coding_transcript_exon_variant 0.36
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.68
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.7
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.64
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.75
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.64
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.59
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.57
rrl 1475982 n.2325G>A non_coding_transcript_exon_variant 0.53
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.56
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.29
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.25
rrl 1476126 n.2469C>T non_coding_transcript_exon_variant 0.25
rrl 1476128 n.2471T>A non_coding_transcript_exon_variant 0.25
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.25
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.56
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.56
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.53
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.53
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.47
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.38
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.38
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.2
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.78
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.8
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.62
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.67
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.67
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.65
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.61
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.61
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.6
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.48
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.48
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.48
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.4
rrl 1476608 n.2951C>T non_coding_transcript_exon_variant 0.38
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.4
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.4
rrl 1476628 n.2971T>C non_coding_transcript_exon_variant 0.36
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.36
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.32
inhA 1674658 p.Arg153Trp missense_variant 0.12
rpsA 1833661 c.120A>G synonymous_variant 0.23
rpsA 1833665 p.Thr42Val missense_variant 0.21
rpsA 1833676 c.135A>G synonymous_variant 0.15
rpsA 1833679 c.138G>C synonymous_variant 0.15
rpsA 1833697 c.156C>G synonymous_variant 0.25
rpsA 1833700 c.159C>G synonymous_variant 0.2
rpsA 1833721 c.180A>G synonymous_variant 0.17
rpsA 1833727 c.186G>C synonymous_variant 0.17
rpsA 1833734 p.Ala65Ser missense_variant 0.2
rpsA 1833742 c.201A>G synonymous_variant 0.2
rpsA 1833745 c.204G>C synonymous_variant 0.22
rpsA 1833769 c.228C>G synonymous_variant 0.12
rpsA 1834090 c.549G>C synonymous_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834219 c.678C>G synonymous_variant 0.12
rpsA 1834222 c.681T>C synonymous_variant 0.12
rpsA 1834225 c.684C>G synonymous_variant 0.14
rpsA 1834228 c.687C>T synonymous_variant 0.15
rpsA 1834231 c.690T>C synonymous_variant 0.15
rpsA 1834234 c.693G>C synonymous_variant 0.17
rpsA 1834240 c.699T>C synonymous_variant 0.18
rpsA 1834249 c.708T>C synonymous_variant 0.2
rpsA 1834261 c.720A>G synonymous_variant 0.24
rpsA 1834264 c.723G>C synonymous_variant 0.24
rpsA 1834294 c.753G>C synonymous_variant 0.17
rpsA 1834298 p.Gln253Glu missense_variant 0.17
rpsA 1834303 c.762T>C synonymous_variant 0.15
rpsA 1834306 c.765T>C synonymous_variant 0.17
rpsA 1834307 p.Asp256Thr missense_variant 0.15
rpsA 1834340 p.Met267Leu missense_variant 0.12
rpsA 1834468 c.927A>G synonymous_variant 0.17
rpsA 1834474 c.933C>G synonymous_variant 0.2
rpsA 1834483 p.Glu314Asp missense_variant 0.2
rpsA 1834489 c.948T>C synonymous_variant 0.22
rpsA 1834528 c.987T>C synonymous_variant 0.12
rpsA 1834776 p.Ala412Val missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154873 p.Tyr413* stop_gained 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170784 c.-172A>G upstream_gene_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726506 p.Thr105Lys missense_variant 0.29
thyX 3067325 c.621A>G synonymous_variant 0.14
thyX 3067355 c.591A>C synonymous_variant 0.22
thyX 3067358 p.Ile196Val missense_variant 0.22
thyX 3067385 c.561C>G synonymous_variant 0.42
thyX 3067391 c.555G>C synonymous_variant 0.36
thyX 3067400 c.546C>G synonymous_variant 0.38
thyX 3067403 c.543C>G synonymous_variant 0.38
thyX 3067406 c.540A>G synonymous_variant 0.43
thyX 3067433 c.513C>G synonymous_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3613108 c.9T>G synonymous_variant 0.2
fbiA 3640353 c.-190G>T upstream_gene_variant 0.2
fbiB 3640879 c.-656C>T upstream_gene_variant 1.0
clpC1 4039481 c.1224T>C synonymous_variant 0.16
clpC1 4039484 c.1221T>C synonymous_variant 0.15
clpC1 4039487 c.1218G>C synonymous_variant 0.19
clpC1 4039526 c.1179G>C synonymous_variant 0.18
clpC1 4039533 p.Asn391Ser missense_variant 0.17
clpC1 4039541 c.1164C>G synonymous_variant 0.16
clpC1 4039553 c.1152C>G synonymous_variant 0.11
clpC1 4039865 c.840T>C synonymous_variant 0.24
clpC1 4039875 p.Asn277Arg missense_variant 0.29
clpC1 4039898 c.807C>G synonymous_variant 0.31
clpC1 4039904 c.801A>G synonymous_variant 0.38
clpC1 4039979 c.726C>G synonymous_variant 0.23
clpC1 4040000 p.His235Lys missense_variant 0.23
clpC1 4040003 c.702G>C synonymous_variant 0.25
clpC1 4040009 c.696C>G synonymous_variant 0.42
clpC1 4040021 c.684A>T synonymous_variant 0.41
clpC1 4040024 c.681A>G synonymous_variant 0.39
clpC1 4040031 p.Val225Ala missense_variant 0.28
clpC1 4040033 c.672G>C synonymous_variant 0.35
clpC1 4040048 c.657C>T synonymous_variant 0.27
clpC1 4040087 c.618G>T synonymous_variant 0.21
clpC1 4040090 c.615T>C synonymous_variant 0.21
clpC1 4040644 c.61A>C synonymous_variant 0.13
embC 4240766 p.Arg302Trp missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243598 c.366G>A synonymous_variant 1.0
embB 4247872 c.1359C>T synonymous_variant 1.0
aftB 4266964 p.Pro625Thr missense_variant 0.14
aftB 4267464 p.Asn458Ile missense_variant 0.17
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4326474 p.Pro334Ala missense_variant 1.0
whiB6 4338326 p.Ala66Thr missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0
mshA 575010 c.-337_600del start_lost&conservative_inframe_deletion 1.0