TB-Profiler result

Run: SRR1140574
Summary

Run ID: SRR1140574

Sample name:

Date: 02-04-2023 20:56:13

Number of reads: 1045709

Percentage reads mapped: 40.54

Strain: lineage4.8;lineage4.3.3

Drug-resistance: MDR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 0.82
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.08
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.87
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 761110 p.Asp435Val missense_variant 0.79 rifampicin
rpoB 761127 p.Ser441Ala missense_variant 0.11 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 0.14 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.83 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.6 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2155168 p.Ser315Thr missense_variant 0.71 isoniazid
embB 4247729 p.Gly406Ser missense_variant 0.75 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.81
gyrA 8040 p.Gly247Ser missense_variant 0.79
gyrA 8444 c.1143G>C synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 0.7
mshA 576467 p.Val374Leu missense_variant 0.13
mshA 576658 c.1311G>A synonymous_variant 0.13
rpoB 760991 c.1185G>C synonymous_variant 0.19
rpoB 760997 c.1191G>C synonymous_variant 0.18
rpoB 761006 c.1200C>G synonymous_variant 0.17
rpoB 761013 p.Val403Ile missense_variant 0.17
rpoB 761021 c.1215G>C synonymous_variant 0.18
rpoB 761027 c.1221A>G synonymous_variant 0.17
rpoB 761036 c.1230G>C synonymous_variant 0.17
rpoB 761037 c.1231T>C synonymous_variant 0.17
rpoB 761046 p.Ile414Val missense_variant 0.17
rpoB 761051 c.1245G>C synonymous_variant 0.15
rpoB 761054 c.1248G>C synonymous_variant 0.16
rpoB 761084 c.1278C>A synonymous_variant 0.14
rpoB 761132 c.1326G>T synonymous_variant 0.11
rpoB 761133 c.1327T>C synonymous_variant 0.11
rpoB 761150 c.1344A>C synonymous_variant 0.13
rpoB 761345 c.1539G>C synonymous_variant 0.2
rpoB 761385 p.Ala527Thr missense_variant 0.13
rpoB 761534 c.1728G>C synonymous_variant 0.18
rpoB 761555 c.1749G>C synonymous_variant 0.12
rpoB 761558 c.1752C>G synonymous_variant 0.12
rpoB 761562 p.Ala586Ser missense_variant 0.12
rpoB 761565 p.Met587Leu missense_variant 0.12
rpoB 761568 p.Ile588Val missense_variant 0.12
rpoB 761579 c.1773G>C synonymous_variant 0.13
rpoB 761588 c.1782C>T synonymous_variant 0.14
rpoB 761594 c.1788C>G synonymous_variant 0.18
rpoB 761595 p.Asn597Gln missense_variant 0.17
rpoB 761600 c.1794T>C synonymous_variant 0.17
rpoB 761612 c.1806G>C synonymous_variant 0.13
rpoB 761615 c.1809A>C synonymous_variant 0.13
rpoB 761880 p.Ala692Thr missense_variant 1.0
rpoB 762879 p.Met1025Leu missense_variant 0.35
rpoC 762887 c.-483G>C upstream_gene_variant 0.5
rpoC 762929 c.-441G>T upstream_gene_variant 0.64
rpoC 762959 c.-411G>C upstream_gene_variant 0.49
rpoC 762962 c.-408C>T upstream_gene_variant 0.45
rpoC 762983 c.-387C>A upstream_gene_variant 0.34
rpoC 762989 c.-381G>C upstream_gene_variant 0.24
rpoC 762995 c.-375G>T upstream_gene_variant 0.15
rpoC 763058 c.-312C>G upstream_gene_variant 0.23
rpoB 763075 p.Thr1090Ile missense_variant 0.36
rpoB 763077 p.Val1091Leu missense_variant 0.36
rpoC 763115 c.-255T>C upstream_gene_variant 0.43
rpoB 763126 p.Pro1107Gln missense_variant 0.36
rpoC 763133 c.-237G>C upstream_gene_variant 0.33
rpoC 763142 c.-228C>G upstream_gene_variant 0.31
rpoC 763528 c.159G>C synonymous_variant 0.13
rpoC 763534 c.165T>C synonymous_variant 0.11
rpoC 763550 p.Tyr61Ala missense_variant 0.12
rpoC 763570 c.201G>C synonymous_variant 0.17
rpoC 763573 c.204G>C synonymous_variant 0.17
rpoC 763589 p.Ile74Val missense_variant 0.21
rpoC 763609 c.240C>G synonymous_variant 0.18
rpoC 763630 c.261G>C synonymous_variant 0.12
rpoC 763642 c.273G>C synonymous_variant 0.21
rpoC 763648 c.279C>T synonymous_variant 0.29
rpoC 763660 c.291T>C synonymous_variant 0.33
rpoC 763666 c.297G>T synonymous_variant 0.39
rpoC 763696 c.327T>C synonymous_variant 0.42
rpoC 763708 c.339G>C synonymous_variant 0.38
rpoC 763711 c.342G>C synonymous_variant 0.37
rpoC 763714 c.345G>C synonymous_variant 0.37
rpoC 763717 c.348T>C synonymous_variant 0.41
rpoC 763727 p.Leu120Met missense_variant 0.41
rpoC 763732 c.363C>G synonymous_variant 0.32
rpoC 763744 c.375G>C synonymous_variant 0.23
rpoC 763751 p.Ile128Val missense_variant 0.23
rpoC 763765 c.396T>C synonymous_variant 0.22
rpoC 763768 c.399C>G synonymous_variant 0.14
rpoC 764301 p.Gly311Ala missense_variant 0.12
rpoC 764316 p.Ala316Val missense_variant 0.34
rpoC 764344 c.975C>T synonymous_variant 0.53
rpoC 764353 c.984G>C synonymous_variant 0.53
rpoC 764365 c.996C>T synonymous_variant 0.58
rpoC 764371 c.1002G>C synonymous_variant 0.6
rpoC 764380 c.1011G>C synonymous_variant 0.65
rpoC 764387 c.1018T>C synonymous_variant 0.59
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.44
rpoC 764428 c.1059G>C synonymous_variant 0.14
rpoC 764444 p.Asp359Tyr missense_variant 0.14
rpoC 764497 c.1128A>G synonymous_variant 0.4
rpoC 764498 p.Ser377Ala missense_variant 0.4
rpoC 764503 c.1134G>C synonymous_variant 0.4
rpoC 764521 c.1152T>C synonymous_variant 0.21
rpoC 764593 c.1224C>A synonymous_variant 0.32
rpoC 764602 c.1233C>T synonymous_variant 0.36
rpoC 764605 c.1236G>C synonymous_variant 0.41
rpoC 764611 c.1242G>C synonymous_variant 0.46
rpoC 764626 c.1257C>A synonymous_variant 0.57
rpoC 764650 c.1281G>T synonymous_variant 0.62
rpoC 764662 c.1293G>C synonymous_variant 0.58
rpoC 764706 p.Leu446Gln missense_variant 0.49
rpoC 764716 c.1347G>C synonymous_variant 0.38
rpoC 764722 c.1353G>C synonymous_variant 0.33
rpoC 764737 c.1368G>C synonymous_variant 0.16
rpoC 764740 p.Met457Ile missense_variant 0.16
rpoC 764995 c.1626C>G synonymous_variant 0.83
rpoC 765671 p.Asp768Tyr missense_variant 0.77
rpoC 766058 p.Ile897Phe missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781793 c.234G>C synonymous_variant 0.12
rpsL 781802 c.243G>C synonymous_variant 0.11
rpsL 781805 c.246G>C synonymous_variant 0.11
rpsL 781814 c.255C>T synonymous_variant 0.12
rpsL 781817 c.258G>T synonymous_variant 0.13
rplC 801025 p.Ala73Thr missense_variant 0.17
fbiC 1303862 p.Ile311Thr missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471878 n.33C>T non_coding_transcript_exon_variant 0.26
rrs 1472068 n.223T>G non_coding_transcript_exon_variant 0.12
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.33
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.4
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.55
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.55
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.52
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.5
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.5
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.56
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.67
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.71
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.7
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.64
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.19
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.19
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.25
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.39
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.45
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.5
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.55
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.57
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.52
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.43
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.33
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.12
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.32
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.32
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.32
rrs 1472507 n.662C>T non_coding_transcript_exon_variant 0.52
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.8
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.77
rrs 1472571 n.726G>A non_coding_transcript_exon_variant 0.81
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.83
rrs 1472606 n.761C>G non_coding_transcript_exon_variant 0.81
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.77
rrs 1472623 n.778A>C non_coding_transcript_exon_variant 0.8
rrs 1472645 n.800G>C non_coding_transcript_exon_variant 0.67
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.66
rrs 1472660 n.815T>A non_coding_transcript_exon_variant 0.68
rrs 1472666 n.821G>T non_coding_transcript_exon_variant 0.61
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.31
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.31
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.3
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.3
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.3
rrs 1472686 n.841G>A non_coding_transcript_exon_variant 0.26
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.32
rrs 1472694 n.849C>A non_coding_transcript_exon_variant 0.41
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.45
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.57
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.69
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.69
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.45
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.7
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.7
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.7
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.7
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.8
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.77
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.76
rrs 1472993 n.1148G>T non_coding_transcript_exon_variant 0.77
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.64
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.67
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.67
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.75
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.7
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.71
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.67
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.67
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.67
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.69
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.69
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.7
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.71
rrs 1473147 n.1302G>A non_coding_transcript_exon_variant 0.72
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 0.69
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.69
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.85
rrs 1473269 n.1424C>T non_coding_transcript_exon_variant 0.8
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.79
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.74
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.73
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.69
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.62
rrs 1473320 n.1475G>A non_coding_transcript_exon_variant 0.61
rrs 1473324 n.1479G>A non_coding_transcript_exon_variant 0.58
rrl 1473828 n.173_174delTG non_coding_transcript_exon_variant 0.18
rrl 1473844 n.187C>T non_coding_transcript_exon_variant 0.22
rrl 1473870 n.213G>A non_coding_transcript_exon_variant 0.2
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.21
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.21
rrl 1473883 n.226A>G non_coding_transcript_exon_variant 0.22
rrl 1473887 n.230T>C non_coding_transcript_exon_variant 0.22
rrl 1473888 n.231T>C non_coding_transcript_exon_variant 0.22
rrl 1473890 n.233T>C non_coding_transcript_exon_variant 0.22
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.23
rrl 1473899 n.242A>T non_coding_transcript_exon_variant 0.23
rrl 1473916 n.259C>A non_coding_transcript_exon_variant 0.21
rrl 1473917 n.260G>C non_coding_transcript_exon_variant 0.18
rrl 1473922 n.265A>T non_coding_transcript_exon_variant 0.21
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.25
rrl 1474166 n.509G>A non_coding_transcript_exon_variant 0.29
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.58
rrl 1474184 n.527C>A non_coding_transcript_exon_variant 0.6
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.56
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.56
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.67
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.75
rrl 1474265 n.608G>T non_coding_transcript_exon_variant 0.6
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.5
rrl 1474275 n.618T>A non_coding_transcript_exon_variant 0.3
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.44
rrl 1474351 n.694G>C non_coding_transcript_exon_variant 0.44
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.46
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.52
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.52
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.5
rrl 1474452 n.795C>G non_coding_transcript_exon_variant 0.2
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.17
rrl 1474466 n.809G>A non_coding_transcript_exon_variant 0.44
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.54
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.7
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.73
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.73
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.74
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.74
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.77
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.77
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.75
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.73
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.73
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.65
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.62
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.62
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.62
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.63
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.68
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.38
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.36
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.28
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.28
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.26
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.36
rrl 1474770 n.1113G>A non_coding_transcript_exon_variant 0.33
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.33
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.33
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.35
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.36
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.41
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.49
rrl 1474800 n.1143T>C non_coding_transcript_exon_variant 0.51
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.49
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.46
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.43
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.43
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.44
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.38
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.36
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.41
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.44
rrl 1474935 n.1278A>G non_coding_transcript_exon_variant 0.17
rrl 1474938 n.1281G>A non_coding_transcript_exon_variant 0.17
rrl 1474988 n.1331C>T non_coding_transcript_exon_variant 1.0
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 0.29
rrl 1475108 n.1451C>T non_coding_transcript_exon_variant 0.31
rrl 1475111 n.1454G>A non_coding_transcript_exon_variant 0.31
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.29
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.29
rrl 1475119 n.1462C>T non_coding_transcript_exon_variant 0.29
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.29
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 0.28
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.35
rrl 1475493 n.1836G>T non_coding_transcript_exon_variant 0.14
rrl 1475508 n.1851A>T non_coding_transcript_exon_variant 0.53
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.57
rrl 1475536 n.1879C>A non_coding_transcript_exon_variant 0.47
rrl 1475538 n.1881T>A non_coding_transcript_exon_variant 0.47
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.47
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.47
rrl 1475548 n.1891C>T non_coding_transcript_exon_variant 0.44
rrl 1475549 n.1892T>C non_coding_transcript_exon_variant 0.44
rrl 1475550 n.1893A>G non_coding_transcript_exon_variant 0.44
rrl 1475692 n.2035G>C non_coding_transcript_exon_variant 0.5
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.67
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.64
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.87
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.8
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.8
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.81
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.81
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.85
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.84
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.78
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.74
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.71
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.71
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.74
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.76
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.75
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.75
rrl 1476025 n.2368G>T non_coding_transcript_exon_variant 0.5
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.44
rrl 1476032 n.2375C>G non_coding_transcript_exon_variant 0.36
rrl 1476033 n.2376T>G non_coding_transcript_exon_variant 0.36
rrl 1476034 n.2377C>T non_coding_transcript_exon_variant 0.36
rrl 1476045 n.2388G>A non_coding_transcript_exon_variant 0.33
rrl 1476046 n.2389G>C non_coding_transcript_exon_variant 0.33
rrl 1476047 n.2390G>C non_coding_transcript_exon_variant 0.33
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.36
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 0.44
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.2
rrl 1476079 n.2422G>A non_coding_transcript_exon_variant 0.2
rrl 1476080 n.2423T>C non_coding_transcript_exon_variant 0.2
rrl 1476081 n.2424A>T non_coding_transcript_exon_variant 0.2
rrl 1476082 n.2425T>C non_coding_transcript_exon_variant 0.2
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.25
rrl 1476087 n.2430C>T non_coding_transcript_exon_variant 0.25
rrl 1476095 n.2438C>T non_coding_transcript_exon_variant 0.4
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.42
rrl 1476104 n.2448delG non_coding_transcript_exon_variant 0.42
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.53
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.64
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.69
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.75
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.78
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.8
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.8
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.8
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.8
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.78
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.76
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.79
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.76
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.57
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.58
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.58
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.58
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.58
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.6
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.6
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.59
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.71
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.66
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.69
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.75
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.75
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.66
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.5
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.35
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.35
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.32
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.3
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.32
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.32
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.3
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.33
rrl 1476544 n.2887T>A non_coding_transcript_exon_variant 0.36
rrl 1476566 n.2909A>T non_coding_transcript_exon_variant 0.42
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.44
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.33
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.32
rrl 1476586 n.2929C>T non_coding_transcript_exon_variant 0.32
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.34
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.3
rrl 1476613 n.2956G>A non_coding_transcript_exon_variant 0.34
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.34
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.36
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.37
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.37
rrl 1476630 n.2973A>T non_coding_transcript_exon_variant 0.37
rpsA 1833703 c.162C>T synonymous_variant 0.13
rpsA 1833704 p.Ile55Val missense_variant 0.13
rpsA 1833721 c.180A>G synonymous_variant 0.27
rpsA 1833724 c.183C>T synonymous_variant 0.29
rpsA 1833727 c.186G>C synonymous_variant 0.29
rpsA 1833734 p.Ala65Ser missense_variant 0.29
rpsA 1833742 c.201A>G synonymous_variant 0.3
rpsA 1833745 c.204G>C synonymous_variant 0.31
rpsA 1833748 c.207C>G synonymous_variant 0.33
rpsA 1833781 c.240T>C synonymous_variant 0.38
rpsA 1833782 p.Ser81Ala missense_variant 0.38
rpsA 1833790 c.249T>C synonymous_variant 0.36
rpsA 1833794 p.Glu85Gln missense_variant 0.36
rpsA 1833802 c.261A>G synonymous_variant 0.27
rpsA 1833811 c.270G>T synonymous_variant 0.28
rpsA 1833815 p.Thr92Gln missense_variant 0.26
rpsA 1833829 c.288A>G synonymous_variant 0.26
rpsA 1833832 c.291G>A synonymous_variant 0.25
rpsA 1833838 c.297G>C synonymous_variant 0.23
rpsA 1833841 c.300C>G synonymous_variant 0.23
rpsA 1834387 c.846C>T synonymous_variant 0.15
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918526 p.Gly196Glu missense_variant 0.71
katG 2154459 c.1653C>T synonymous_variant 1.0
PPE35 2168344 p.Gly757Cys missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289431 c.-190G>T upstream_gene_variant 1.0
pncA 2289877 c.-636C>T upstream_gene_variant 0.2
kasA 2518400 p.Glu96Lys missense_variant 0.11
kasA 2518919 p.Gly269Ser missense_variant 0.92
eis 2714424 c.909C>A synonymous_variant 0.13
eis 2714522 p.Pro271Thr missense_variant 0.14
ahpC 2726639 c.447C>G synonymous_variant 0.15
folC 2746716 p.Gly295Ser missense_variant 0.17
Rv2752c 3064965 c.1227G>C synonymous_variant 0.12
thyX 3067226 c.719delA frameshift_variant 0.12
thyX 3068105 c.-160C>G upstream_gene_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 0.94
ald 3086788 c.-32T>C upstream_gene_variant 0.9
Rv3083 3449843 p.Gly447Asp missense_variant 0.2
Rv3083 3449990 c.1487G>T stop_lost&splice_region_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.5
fbiB 3642705 p.Arg391Gly missense_variant 0.11
alr 3841578 c.-158G>C upstream_gene_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 0.68
clpC1 4038836 c.1869G>C synonymous_variant 0.15
clpC1 4038839 c.1866G>C synonymous_variant 0.15
clpC1 4038845 c.1858_1860delTCGinsAGT synonymous_variant 0.14
clpC1 4038860 c.1845G>C synonymous_variant 0.15
clpC1 4039487 c.1218G>C synonymous_variant 0.15
clpC1 4039508 c.1197G>C synonymous_variant 0.12
clpC1 4039517 c.1188C>G synonymous_variant 0.13
clpC1 4039520 c.1185G>C synonymous_variant 0.13
clpC1 4039526 c.1179G>C synonymous_variant 0.13
clpC1 4039537 p.Ile390Val missense_variant 0.25
clpC1 4039550 c.1155G>C synonymous_variant 0.19
clpC1 4039554 p.Thr384Asn missense_variant 0.14
clpC1 4039559 c.1146C>G synonymous_variant 0.15
clpC1 4039568 p.Met379Ile missense_variant 0.14
clpC1 4039574 p.Ala377Gly missense_variant 0.13
clpC1 4039577 c.1128T>C synonymous_variant 0.12
clpC1 4039587 p.Ser373Gln missense_variant 0.23
clpC1 4039593 p.Arg371Lys missense_variant 0.21
clpC1 4039616 c.1089G>C synonymous_variant 0.25
clpC1 4039622 c.1083C>G synonymous_variant 0.31
clpC1 4039634 p.Glu357Asn missense_variant 0.14
clpC1 4039640 p.Thr355Ala missense_variant 0.13
clpC1 4039647 p.Glu353Pro missense_variant 0.13
clpC1 4039651 p.Val352Leu missense_variant 0.12
clpC1 4039661 p.Gly348Asn missense_variant 0.12
clpC1 4039691 c.1014G>C synonymous_variant 0.3
clpC1 4039694 c.1011G>A synonymous_variant 0.3
clpC1 4039711 p.Ile332Phe missense_variant 0.22
clpC1 4039714 p.Tyr331His missense_variant 0.22
clpC1 4039724 c.981A>G synonymous_variant 0.33
clpC1 4039742 c.963C>G synonymous_variant 0.29
clpC1 4039751 c.954A>G synonymous_variant 0.24
clpC1 4039754 c.951G>C synonymous_variant 0.26
clpC1 4039757 c.948A>G synonymous_variant 0.25
clpC1 4039766 c.939T>C synonymous_variant 0.15
clpC1 4039774 p.Lys311Gln missense_variant 0.12
clpC1 4039778 c.927A>G synonymous_variant 0.12
clpC1 4039781 c.924G>C synonymous_variant 0.13
clpC1 4039787 c.916_918delTCGinsAGC synonymous_variant 0.14
clpC1 4039793 c.912C>G synonymous_variant 0.15
clpC1 4039817 c.888A>T synonymous_variant 0.18
clpC1 4039898 c.807C>G synonymous_variant 0.12
clpC1 4039904 c.801A>G synonymous_variant 0.18
clpC1 4039929 c.775_776delAGinsTC synonymous_variant 0.14
clpC1 4039934 c.771G>C synonymous_variant 0.16
clpC1 4039937 p.Val256Ile missense_variant 0.17
clpC1 4039940 c.765G>C synonymous_variant 0.17
clpC1 4039946 c.759A>C synonymous_variant 0.17
clpC1 4039949 c.756G>C synonymous_variant 0.17
clpC1 4039952 c.753T>C synonymous_variant 0.16
clpC1 4039955 c.750G>C synonymous_variant 0.25
clpC1 4039960 p.Thr249Ser missense_variant 0.25
clpC1 4039979 c.726C>G synonymous_variant 0.42
clpC1 4039994 p.Glu237Asp missense_variant 0.42
clpC1 4040000 p.His235Lys missense_variant 0.38
clpC1 4040003 c.702G>C synonymous_variant 0.38
clpC1 4040018 c.687G>C synonymous_variant 0.52
clpC1 4040021 c.684A>C synonymous_variant 0.52
clpC1 4040024 c.681A>G synonymous_variant 0.44
clpC1 4040030 c.675C>G synonymous_variant 0.12
clpC1 4040033 c.672G>C synonymous_variant 0.52
clpC1 4040051 c.654C>G synonymous_variant 0.12
clpC1 4040057 c.648C>A synonymous_variant 0.61
clpC1 4040063 p.Leu214Phe missense_variant 0.44
clpC1 4040066 c.639G>C synonymous_variant 0.38
clpC1 4040069 c.636G>C synonymous_variant 0.55
clpC1 4040083 p.Thr208Ser missense_variant 0.18
clpC1 4040087 c.618G>T synonymous_variant 0.21
clpC1 4040090 c.615T>C synonymous_variant 0.21
clpC1 4040096 p.Val203Ile missense_variant 0.23
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328378 c.-905G>C upstream_gene_variant 0.28
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407608 p.Pro199Ser missense_variant 0.12
gid 4407695 p.Glu170Lys missense_variant 0.91
gid 4407720 c.483C>G synonymous_variant 0.95
gid 4408156 p.Leu16Arg missense_variant 0.91