TB-Profiler result

Run: SRR1181251
Summary

Run ID: SRR1181251

Sample name:

Date: 03-04-2023 04:41:47

Number of reads: 3510673

Percentage reads mapped: 79.04

Strain: lineage2.2.1

Drug-resistance: Other

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
lineage2 East-Asian Beijing RD105 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.98
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
embB 4247448 p.His312Arg missense_variant 0.14 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 6307 c.-995T>G upstream_gene_variant 0.15
gyrA 6730 c.-572A>G upstream_gene_variant 0.14
gyrA 6745 c.-557T>C upstream_gene_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7541 c.240C>G synonymous_variant 0.14
gyrA 7547 c.246C>T synonymous_variant 0.15
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7595 c.294C>G synonymous_variant 0.16
gyrA 7601 c.300C>G synonymous_variant 0.17
gyrA 7799 c.498A>G synonymous_variant 0.14
gyrA 8603 c.1302A>G synonymous_variant 0.14
gyrA 8609 c.1308G>C synonymous_variant 0.16
gyrA 8619 c.1318T>C synonymous_variant 0.16
gyrA 8645 c.1344C>T synonymous_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491106 c.324T>C synonymous_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 0.99
mshA 575907 p.Ala187Val missense_variant 0.9
ccsA 620415 c.525T>C synonymous_variant 0.15
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760196 c.390C>G synonymous_variant 0.14
rpoB 760235 c.429T>C synonymous_variant 0.15
rpoB 760430 c.624T>C synonymous_variant 0.14
rpoB 760611 c.805T>C synonymous_variant 0.14
rpoB 761537 c.1731C>G synonymous_variant 0.14
rpoB 761561 c.1755C>G synonymous_variant 0.15
rpoB 761564 c.1758G>C synonymous_variant 0.15
rpoB 761606 c.1800C>G synonymous_variant 0.15
rpoB 761612 c.1806G>T synonymous_variant 0.15
rpoB 761615 c.1809A>C synonymous_variant 0.16
rpoB 761636 c.1830G>T synonymous_variant 0.16
rpoB 762053 c.2247T>C synonymous_variant 0.15
rpoB 762065 c.2259T>C synonymous_variant 0.15
rpoB 762114 p.Ile770Val missense_variant 0.17
rpoB 762185 c.2379G>C synonymous_variant 0.14
rpoB 762254 c.2448T>C synonymous_variant 1.0
rpoC 762395 c.-975G>C upstream_gene_variant 0.15
rpoC 762404 c.-966T>C upstream_gene_variant 0.14
rpoC 762410 c.-960T>C upstream_gene_variant 0.17
rpoC 762416 c.-954A>G upstream_gene_variant 0.18
rpoC 762470 c.-900G>C upstream_gene_variant 0.15
rpoC 762857 c.-513C>G upstream_gene_variant 0.15
rpoC 763028 c.-342T>C upstream_gene_variant 0.19
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763034 c.-336C>G upstream_gene_variant 0.2
rpoC 763040 c.-330C>G upstream_gene_variant 0.2
rpoC 763070 c.-300T>C upstream_gene_variant 0.2
rpoC 763085 c.-285C>G upstream_gene_variant 0.2
rpoC 763115 c.-255T>C upstream_gene_variant 0.17
rpoC 763127 c.-243G>C upstream_gene_variant 0.19
rpoC 763169 c.-201A>G upstream_gene_variant 0.22
rpoC 763202 c.-168A>G upstream_gene_variant 0.16
rpoC 763206 c.-164_-163delAGinsTC upstream_gene_variant 0.15
rpoC 763486 c.117T>C synonymous_variant 0.14
rpoC 763660 c.291T>G synonymous_variant 0.14
rpoC 763702 c.333C>G synonymous_variant 0.16
rpoC 763714 c.345G>C synonymous_variant 0.18
rpoC 763732 c.363C>G synonymous_variant 0.21
rpoC 763744 c.375G>C synonymous_variant 0.21
rpoC 763765 c.396T>C synonymous_variant 0.19
rpoC 763781 p.Ser138Ala missense_variant 0.18
rpoC 763807 c.438T>C synonymous_variant 0.14
rpoC 764024 c.655T>C synonymous_variant 0.14
rpoC 764083 c.714A>G synonymous_variant 0.22
rpoC 764098 c.729A>G synonymous_variant 0.15
rpoC 764278 c.909A>G synonymous_variant 0.24
rpoC 764284 c.915G>C synonymous_variant 0.17
rpoC 764317 c.948C>G synonymous_variant 0.2
rpoC 764320 c.951C>T synonymous_variant 0.16
rpoC 764365 c.996C>T synonymous_variant 0.18
rpoC 764387 c.1018T>C synonymous_variant 0.14
rpoC 764405 c.1036A>C synonymous_variant 0.14
rpoC 764539 c.1170C>G synonymous_variant 0.2
rpoC 764575 c.1206T>G synonymous_variant 0.16
rpoC 764611 c.1242G>T synonymous_variant 0.15
rpoC 764626 c.1257C>T synonymous_variant 0.17
rpoC 764668 c.1299C>T synonymous_variant 0.24
rpoC 764746 c.1377G>T synonymous_variant 0.16
rpoC 764752 c.1383G>C synonymous_variant 0.2
rpoC 764755 c.1386C>T synonymous_variant 0.14
rpoC 764764 c.1395T>C synonymous_variant 0.18
rpoC 764923 c.1554A>G synonymous_variant 0.17
rpoC 764932 c.1563C>G synonymous_variant 0.14
rpoC 764948 c.1579T>C synonymous_variant 0.14
rpoC 765547 c.2178C>A synonymous_variant 0.16
rpoC 765556 c.2187G>C synonymous_variant 0.18
rpoC 765562 c.2193G>C synonymous_variant 0.18
rpoC 765583 c.2214G>T synonymous_variant 0.17
rpoC 765628 c.2259G>C synonymous_variant 0.14
rpoC 765700 c.2331T>C synonymous_variant 0.16
rpoC 765734 c.2365T>C synonymous_variant 0.18
rpoC 765835 c.2466C>T synonymous_variant 0.15
rpoC 765883 c.2514C>G synonymous_variant 0.15
rpoC 765886 c.2517C>G synonymous_variant 0.16
rpoC 765892 c.2523T>C synonymous_variant 0.15
rpoC 765967 c.2598C>T synonymous_variant 0.14
rpoC 765979 c.2610C>G synonymous_variant 0.15
rpoC 765994 c.2625A>T synonymous_variant 0.14
rpoC 766408 c.3039C>T synonymous_variant 0.18
rpoC 766426 c.3057C>T synonymous_variant 0.21
rpoC 766486 c.3117A>G synonymous_variant 0.17
rpoC 766726 c.3357T>C synonymous_variant 0.21
rpoC 766765 c.3396A>C synonymous_variant 0.22
rpoC 766774 c.3405T>C synonymous_variant 0.21
rpoC 766804 c.3435A>G synonymous_variant 0.18
rpoC 766963 c.3594T>C synonymous_variant 0.15
rpoC 766972 c.3603G>C synonymous_variant 0.23
rpoC 766975 c.3606C>T synonymous_variant 0.16
rpoC 766996 c.3627C>T synonymous_variant 0.28
rpoC 767002 c.3633G>C synonymous_variant 0.27
rpoC 767033 c.3664_3666delTCGinsAGT synonymous_variant 0.27
rpoC 767044 c.3675G>A synonymous_variant 0.14
rpoC 767059 c.3690T>G synonymous_variant 0.23
rpoC 767062 c.3693C>A synonymous_variant 0.26
rpoC 767098 c.3729T>C synonymous_variant 0.18
rpoC 767221 c.3852C>G synonymous_variant 0.15
rpoC 767233 c.3864T>C synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 0.98
rpsL 781395 c.-165T>C upstream_gene_variant 0.98
rpsL 781649 c.90T>C synonymous_variant 0.14
rpsL 781655 c.96T>C synonymous_variant 0.15
rpsL 781709 c.150G>C synonymous_variant 0.14
rpsL 781715 c.156T>C synonymous_variant 0.15
rpsL 781718 c.159C>G synonymous_variant 0.15
rpsL 781721 c.162C>G synonymous_variant 0.14
rpsL 781728 c.169T>C synonymous_variant 0.2
rpsL 781760 c.201T>C synonymous_variant 0.25
rpsL 781808 c.249C>T synonymous_variant 0.16
rpsL 781832 c.273T>C synonymous_variant 0.14
rpsL 781871 c.312G>C synonymous_variant 0.13
rpsL 781892 c.333A>G synonymous_variant 0.15
rpsL 781898 c.339A>T synonymous_variant 0.14
rpsL 781916 c.357T>C synonymous_variant 0.16
rpsL 781929 p.Gly124Ser missense_variant 0.15
rplC 800612 c.-197A>G upstream_gene_variant 0.19
rplC 800618 c.-191T>C upstream_gene_variant 0.2
rplC 800648 c.-161A>C upstream_gene_variant 0.19
rplC 800693 c.-116A>C upstream_gene_variant 0.19
rplC 800759 c.-50C>T upstream_gene_variant 0.13
rplC 800865 c.57A>G synonymous_variant 0.14
rplC 800922 c.114C>G synonymous_variant 0.14
rplC 800934 c.126C>G synonymous_variant 0.13
rplC 801210 c.402T>C synonymous_variant 0.16
rplC 801297 c.489C>T synonymous_variant 0.15
rplC 801312 c.504G>C synonymous_variant 0.17
rplC 801339 c.531T>G synonymous_variant 0.14
rplC 801341 p.Leu178His missense_variant 0.13
fbiC 1303545 c.615A>G synonymous_variant 0.15
fbiC 1304832 c.1902C>T synonymous_variant 0.15
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
atpE 1461161 c.117C>T synonymous_variant 0.13
atpE 1461219 c.175T>C synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471935 n.90T>C non_coding_transcript_exon_variant 0.16
rrs 1471970 n.125G>A non_coding_transcript_exon_variant 0.13
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.13
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.15
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.14
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.18
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.2
rrl 1473887 n.230T>A non_coding_transcript_exon_variant 0.19
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.18
rrl 1474034 n.377G>A non_coding_transcript_exon_variant 0.14
rrl 1474083 n.426C>T non_coding_transcript_exon_variant 0.19
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.29
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.17
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.17
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.18
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.19
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.15
rrl 1474717 n.1060A>T non_coding_transcript_exon_variant 0.22
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.13
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.24
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.21
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.16
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.15
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.2
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.19
rrl 1475638 n.1981C>T non_coding_transcript_exon_variant 0.15
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.14
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.29
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.2
rrl 1476035 n.2378G>A non_coding_transcript_exon_variant 0.15
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.17
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.16
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.16
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.19
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.21
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.18
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.16
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.17
rrl 1476580 n.2923G>A non_coding_transcript_exon_variant 0.21
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.21
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.14
rrl 1476732 n.3075T>C non_coding_transcript_exon_variant 0.13
rpsA 1833727 c.186G>C synonymous_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2517941 c.-174C>G upstream_gene_variant 0.17
kasA 2517956 c.-159G>A upstream_gene_variant 0.15
kasA 2518561 c.447T>C synonymous_variant 0.15
kasA 2518567 c.453G>T synonymous_variant 0.16
kasA 2518588 c.474T>C synonymous_variant 0.16
kasA 2518591 c.477G>C synonymous_variant 0.15
kasA 2518642 c.528A>G synonymous_variant 0.16
kasA 2518648 c.534C>T synonymous_variant 0.13
kasA 2518672 c.558G>C synonymous_variant 0.22
kasA 2518681 c.567C>T synonymous_variant 0.16
kasA 2518684 c.570C>A synonymous_variant 0.16
kasA 2518711 c.597A>G synonymous_variant 0.22
kasA 2518714 c.600A>T synonymous_variant 0.14
kasA 2518747 c.633C>G synonymous_variant 0.18
kasA 2518864 c.750G>C synonymous_variant 0.14
kasA 2518885 c.771T>C synonymous_variant 0.18
kasA 2518939 c.825T>C synonymous_variant 0.15
kasA 2518942 c.828T>C synonymous_variant 0.16
kasA 2518951 c.837G>A synonymous_variant 0.16
kasA 2518960 c.846C>G synonymous_variant 0.16
kasA 2518963 c.849T>C synonymous_variant 0.15
pepQ 2860448 c.-30C>A upstream_gene_variant 0.14
thyX 3067316 c.630A>G synonymous_variant 0.17
thyX 3067325 c.621A>G synonymous_variant 0.17
thyX 3067373 c.573C>G synonymous_variant 0.18
thyX 3067874 c.72C>G synonymous_variant 0.14
thyA 3073932 c.540C>T synonymous_variant 0.18
thyA 3073989 c.483T>C synonymous_variant 0.14
thyA 3074004 c.468T>C synonymous_variant 0.13
thyA 3074031 c.441T>C synonymous_variant 0.15
thyA 3074037 c.435C>G synonymous_variant 0.14
thyA 3074053 p.Arg140Gln missense_variant 0.15
thyA 3074056 p.Glu139Pro missense_variant 0.15
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 0.97
rpoA 3877613 p.Ile299Val missense_variant 0.14
rpoA 3877668 c.840A>G synonymous_variant 0.19
rpoA 3877680 c.828G>C synonymous_variant 0.16
rpoA 3877692 c.816G>C synonymous_variant 0.19
rpoA 3877764 c.744C>G synonymous_variant 0.14
rpoA 3877770 c.738A>G synonymous_variant 0.14
rpoA 3878157 c.351C>G synonymous_variant 0.18
rpoA 3878163 c.345C>T synonymous_variant 0.17
rpoA 3878193 c.315T>C synonymous_variant 0.2
rpoA 3878217 c.291A>G synonymous_variant 0.24
rpoA 3878247 c.261G>C synonymous_variant 0.26
rpoA 3878256 c.252G>C synonymous_variant 0.28
rpoA 3878262 c.246C>T synonymous_variant 0.27
rpoA 3878271 c.237T>C synonymous_variant 0.24
rpoA 3878283 p.Glu75Asp missense_variant 0.24
rpoA 3878295 c.213A>G synonymous_variant 0.18
rpoA 3878298 c.210A>G synonymous_variant 0.18
rpoA 3878331 c.177A>G synonymous_variant 0.19
rpoA 3878334 c.174T>C synonymous_variant 0.19
rpoA 3878337 c.171T>C synonymous_variant 0.2
clpC1 4038519 p.Arg729Gln missense_variant 0.2
clpC1 4038530 p.Glu725Asp missense_variant 0.21
clpC1 4038536 c.2169C>T synonymous_variant 0.2
clpC1 4038596 c.2109A>G synonymous_variant 0.14
clpC1 4038713 c.1992T>C synonymous_variant 0.14
clpC1 4038790 c.1915C>T synonymous_variant 0.14
clpC1 4038989 c.1716T>C synonymous_variant 0.15
clpC1 4039022 c.1683A>G synonymous_variant 0.16
clpC1 4039085 c.1620A>G synonymous_variant 0.17
clpC1 4039097 c.1608G>C synonymous_variant 0.14
clpC1 4039103 c.1602T>C synonymous_variant 0.13
clpC1 4039106 c.1599G>C synonymous_variant 0.15
clpC1 4039112 c.1593C>G synonymous_variant 0.16
clpC1 4039121 c.1584T>C synonymous_variant 0.14
clpC1 4039517 c.1188C>G synonymous_variant 0.15
clpC1 4039574 c.1131G>C synonymous_variant 0.14
clpC1 4039589 c.1116G>T synonymous_variant 0.14
clpC1 4039610 c.1095G>C synonymous_variant 0.19
clpC1 4039616 c.1089G>C synonymous_variant 0.18
clpC1 4039724 c.981A>G synonymous_variant 0.16
clpC1 4039751 c.954A>G synonymous_variant 0.15
clpC1 4039931 c.774T>C synonymous_variant 0.13
clpC1 4040444 c.261C>T synonymous_variant 0.17
clpC1 4040459 c.246C>G synonymous_variant 0.18
clpC1 4040471 c.234T>C synonymous_variant 0.18
clpC1 4040480 c.225T>C synonymous_variant 0.21
clpC1 4040522 c.183T>C synonymous_variant 0.15
clpC1 4040528 c.177G>C synonymous_variant 0.13
embC 4240486 c.624G>A synonymous_variant 0.16
embC 4240489 c.627A>G synonymous_variant 0.16
embC 4240495 c.633T>C synonymous_variant 0.17
embC 4241140 c.1278A>G synonymous_variant 0.15
embA 4242391 c.-842G>T upstream_gene_variant 0.15
embA 4242400 c.-833C>G upstream_gene_variant 0.15
embC 4242402 p.Arg847His missense_variant 0.15
embA 4242406 c.-827A>T upstream_gene_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246567 c.54G>T synonymous_variant 1.0
embB 4247470 c.957T>C synonymous_variant 0.17
embB 4247497 c.984T>C synonymous_variant 0.16
embB 4247500 c.987C>G synonymous_variant 0.16
embB 4247512 c.999T>C synonymous_variant 0.17
embB 4247554 c.1041T>C synonymous_variant 0.15
embB 4247590 c.1077A>G synonymous_variant 0.16
embB 4248070 c.1557T>C synonymous_variant 0.13
embB 4248277 c.1764G>C synonymous_variant 0.15
aftB 4267535 c.1302A>G synonymous_variant 0.13
aftB 4267556 c.1281G>C synonymous_variant 0.14
aftB 4267622 p.Ser405Thr missense_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 0.87
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 1.0