TB-Profiler result

Run: ERR4816550
Summary

Run ID: ERR4816550

Sample name:

Date: 01-04-2023 14:29:32

Number of reads: 10226

Percentage reads mapped: 24.79

Strain: lineage4.9

Drug-resistance: Sensitive

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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 0.99
lineage4.9 Euro-American (H37Rv-like) T1 None 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
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 7442 c.141G>C synonymous_variant 1.0
gyrA 7451 c.150C>G synonymous_variant 1.0
gyrA 7457 c.156T>C synonymous_variant 1.0
gyrA 7475 c.174A>G synonymous_variant 1.0
gyrA 7480 p.Phe60Tyr missense_variant 1.0
gyrA 7484 c.183T>C synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9153 p.Thr618Ala missense_variant 1.0
fgd1 491283 p.Asp167Glu missense_variant 1.0
fgd1 491286 c.504G>C synonymous_variant 1.0
fgd1 491289 c.507C>G synonymous_variant 1.0
fgd1 491292 c.510G>C synonymous_variant 1.0
fgd1 491295 c.513C>G synonymous_variant 1.0
fgd1 491296 p.Val172Ile missense_variant 1.0
fgd1 491302 p.Ile174Val missense_variant 1.0
fgd1 491307 c.525C>G synonymous_variant 1.0
fgd1 491313 c.531C>G synonymous_variant 1.0
fgd1 491319 c.537G>C synonymous_variant 1.0
fgd1 491325 c.543G>C synonymous_variant 1.0
fgd1 491337 c.555C>G synonymous_variant 1.0
fgd1 491340 c.558C>G synonymous_variant 1.0
fgd1 491349 c.567T>C synonymous_variant 1.0
fgd1 491364 c.582T>C synonymous_variant 1.0
fgd1 491367 c.585G>C synonymous_variant 1.0
fgd1 491393 p.Thr204Asn missense_variant 1.0
rpoB 760196 c.390C>G synonymous_variant 1.0
rpoB 760223 c.417T>C synonymous_variant 1.0
rpoB 760235 c.429T>C synonymous_variant 1.0
rpoB 760475 c.669A>G synonymous_variant 1.0
rpoB 760481 c.675G>C synonymous_variant 1.0
rpoB 760484 c.678A>G synonymous_variant 1.0
rpoB 760522 p.Ser239Asn missense_variant 1.0
rpoB 760532 c.726T>C synonymous_variant 1.0
rpoB 760533 p.Val243Thr missense_variant 1.0
rpoB 760541 c.735G>C synonymous_variant 1.0
rpoB 760547 c.741G>C synonymous_variant 1.0
rpoB 760563 p.Arg253Met missense_variant 1.0
rpoB 760925 c.1119T>C synonymous_variant 1.0
rpoB 760928 c.1122G>C synonymous_variant 1.0
rpoB 760934 c.1128C>T synonymous_variant 1.0
rpoB 760946 c.1140A>G synonymous_variant 1.0
rpoB 760949 c.1143C>T synonymous_variant 1.0
rpoB 760982 c.1176G>C synonymous_variant 1.0
rpoB 760985 c.1179G>C synonymous_variant 1.0
rpoB 760991 c.1185G>C synonymous_variant 1.0
rpoB 761006 c.1200C>G synonymous_variant 1.0
rpoB 761015 c.1209G>C synonymous_variant 1.0
rpoB 761021 c.1215G>C synonymous_variant 1.0
rpoC 763444 c.75T>C synonymous_variant 1.0
rpoC 763456 c.87A>G synonymous_variant 1.0
rpoC 763486 c.117T>G synonymous_variant 1.0
rpoC 763528 c.159G>A synonymous_variant 1.0
rpoC 763546 c.177A>G synonymous_variant 1.0
rpoC 763594 c.225C>T synonymous_variant 1.0
rpoC 763633 c.264T>C synonymous_variant 1.0
rpoC 763636 c.267T>C synonymous_variant 1.0
rpoC 763660 c.291T>G synonymous_variant 1.0
rpoC 763675 c.306C>G synonymous_variant 1.0
rpoC 763696 c.327T>C synonymous_variant 1.0
rpoC 763702 c.333C>G synonymous_variant 1.0
rpoC 763717 c.348T>C synonymous_variant 1.0
rpoC 763723 c.354G>C synonymous_variant 1.0
rpoC 763732 c.363C>G synonymous_variant 1.0
rpoC 763741 c.372C>T synonymous_variant 1.0
rpoC 763744 c.375G>C synonymous_variant 1.0
rpoC 763765 c.396T>C synonymous_variant 1.0
rpoC 763774 c.405G>C synonymous_variant 1.0
rpoC 764215 c.846A>G synonymous_variant 1.0
rpoC 764236 c.867G>A synonymous_variant 1.0
rpoC 764248 c.879C>G synonymous_variant 1.0
rpoC 764266 c.897T>C synonymous_variant 1.0
rpoC 764269 c.900G>C synonymous_variant 1.0
rpoC 764272 c.903G>C synonymous_variant 1.0
rpoC 764278 c.909A>G synonymous_variant 1.0
rpoC 764809 c.1440C>T synonymous_variant 1.0
rpoC 764815 c.1446A>G synonymous_variant 1.0
rpoC 764827 c.1458G>C synonymous_variant 1.0
rpoC 764858 c.1489T>C synonymous_variant 1.0
rpoC 764872 c.1503A>G synonymous_variant 1.0
rpoC 764888 c.1519T>C synonymous_variant 1.0
rpoC 764911 c.1542A>G synonymous_variant 1.0
rpoC 764932 c.1563C>A synonymous_variant 1.0
rpoC 764935 c.1566T>C synonymous_variant 1.0
rpoC 764948 c.1579T>C synonymous_variant 1.0
rpoC 765553 c.2184C>T synonymous_variant 1.0
rpoC 765556 c.2187G>C synonymous_variant 1.0
rpoC 765559 c.2190G>C synonymous_variant 1.0
rpoC 765580 c.2211G>C synonymous_variant 1.0
rpoC 765613 p.His748Gln missense_variant 1.0
rpoC 765625 c.2256C>G synonymous_variant 1.0
rpoC 765631 p.Asp754Glu missense_variant 1.0
rpoC 766657 c.3288A>G synonymous_variant 1.0
rpoC 767098 c.3729T>C synonymous_variant 1.0
rpoC 767119 c.3750A>G synonymous_variant 1.0
rpoC 767134 c.3765C>A synonymous_variant 1.0
rpoC 767158 c.3789T>C synonymous_variant 1.0
rpoC 767180 p.Ala1271Gln missense_variant 1.0
rpoC 767191 c.3822C>G synonymous_variant 1.0
rpoC 767206 c.3837C>G synonymous_variant 1.0
rpoC 767209 c.3840T>C synonymous_variant 1.0
rpoC 767212 c.3843G>C synonymous_variant 1.0
rpoC 767221 c.3852C>G synonymous_variant 1.0
rpsL 781700 c.141G>C synonymous_variant 1.0
rpsL 781703 c.144G>T synonymous_variant 1.0
rpsL 781715 c.156T>C synonymous_variant 1.0
rpsL 781728 c.169T>C synonymous_variant 1.0
rpsL 781736 c.177T>C synonymous_variant 1.0
rpsL 781742 c.183C>T synonymous_variant 1.0
rpsL 781748 c.189C>G synonymous_variant 1.0
rpsL 781754 c.195G>C synonymous_variant 1.0
rpsL 781760 c.201T>C synonymous_variant 1.0
rpsL 781772 c.213C>A synonymous_variant 1.0
rpsL 781865 c.306G>C synonymous_variant 0.67
rpsL 781868 c.309T>C synonymous_variant 0.67
rpsL 781871 c.312G>C synonymous_variant 0.67
rpsL 781877 c.318T>C synonymous_variant 1.0
rpsL 781892 c.333A>G synonymous_variant 0.67
rpsL 781898 c.339A>T synonymous_variant 0.67
rplC 800612 c.-197A>G upstream_gene_variant 1.0
rplC 800618 c.-191T>C upstream_gene_variant 1.0
rplC 800627 c.-182C>T upstream_gene_variant 1.0
rplC 800648 c.-161A>T upstream_gene_variant 1.0
rplC 800654 c.-155T>C upstream_gene_variant 1.0
rplC 800693 c.-116A>G upstream_gene_variant 1.0
rplC 800703 c.-106T>C upstream_gene_variant 1.0
rplC 800715 c.-94A>C upstream_gene_variant 1.0
rplC 800720 c.-89T>C upstream_gene_variant 1.0
rplC 800723 c.-86C>G upstream_gene_variant 1.0
rplC 800747 c.-62C>G upstream_gene_variant 1.0
rrl 1473756 n.99G>A non_coding_transcript_exon_variant 1.0
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 1.0
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 1.0
rpsA 1833532 c.-10A>C upstream_gene_variant 1.0
rpsA 1833554 p.Thr5Ala missense_variant 1.0
rpsA 1833568 c.27G>C synonymous_variant 1.0
rpsA 1833589 c.48A>T synonymous_variant 1.0
rpsA 1833595 c.54T>C synonymous_variant 1.0
rpsA 1834081 c.540C>T synonymous_variant 1.0
rpsA 1834096 c.555G>C synonymous_variant 1.0
rpsA 1834099 c.558C>G synonymous_variant 1.0
rpsA 1834102 c.561T>C synonymous_variant 1.0
rpsA 1834105 c.564C>G synonymous_variant 1.0
rpsA 1834108 c.567C>G synonymous_variant 1.0
rpsA 1834123 c.582C>G synonymous_variant 1.0
rpsA 1834396 c.855G>C synonymous_variant 1.0
rpsA 1834411 c.870T>C synonymous_variant 1.0
rpsA 1834417 c.876G>C synonymous_variant 1.0
rpsA 1834423 c.882G>C synonymous_variant 1.0
rpsA 1834435 c.894G>C synonymous_variant 1.0
rpsA 1834451 c.910T>C synonymous_variant 1.0
rpsA 1834609 c.1068T>C synonymous_variant 1.0
rpsA 1834618 c.1077G>C synonymous_variant 1.0
rpsA 1834633 c.1092A>G synonymous_variant 1.0
rpsA 1834639 c.1098T>C synonymous_variant 1.0
rpsA 1834654 p.Glu371Asp missense_variant 1.0
rpsA 1834690 c.1149T>C synonymous_variant 1.0
kasA 2517950 c.-165C>G upstream_gene_variant 1.0
kasA 2517993 c.-122G>T upstream_gene_variant 1.0
kasA 2518019 c.-96A>G upstream_gene_variant 1.0
kasA 2518025 c.-90G>C upstream_gene_variant 1.0
thyX 3067316 c.630A>G synonymous_variant 1.0
thyX 3067325 c.621A>G synonymous_variant 1.0
rpoA 3878247 c.261G>C synonymous_variant 1.0
rpoA 3878271 c.237T>C synonymous_variant 1.0
rpoA 3878284 p.Glu75Ala missense_variant 1.0
rpoA 3878292 c.216T>C synonymous_variant 1.0
rpoA 3878298 c.210A>G synonymous_variant 1.0
rpoA 3878304 c.204G>C synonymous_variant 1.0
rpoA 3878310 c.198G>C synonymous_variant 1.0
rpoA 3878313 c.195G>C synonymous_variant 1.0
rpoA 3878322 c.186A>G synonymous_variant 1.0
rpoA 3878331 c.177A>G synonymous_variant 1.0
rpoA 3878334 c.174T>C synonymous_variant 1.0
rpoA 3878337 c.171T>C synonymous_variant 1.0
rpoA 3878346 c.162T>C synonymous_variant 1.0
rpoA 3878364 c.144A>C synonymous_variant 1.0
rpoA 3878367 c.141C>G synonymous_variant 1.0
rpoA 3878376 c.132G>C synonymous_variant 1.0
rpoA 3878385 c.123C>G synonymous_variant 1.0
rpoA 3878388 c.120C>G synonymous_variant 1.0
rpoA 3878391 c.117T>C synonymous_variant 1.0
rpoA 3878415 c.93C>T synonymous_variant 1.0
rpoA 3878424 c.84G>C synonymous_variant 1.0
rpoA 3878436 c.72A>G synonymous_variant 1.0
rpoA 3878442 c.66G>C synonymous_variant 1.0
rpoA 3878454 c.54A>C synonymous_variant 1.0
rpoA 3878463 c.45C>A synonymous_variant 1.0
rpoA 3878472 p.Asp12Glu missense_variant 1.0
rpoA 3878478 c.30C>G synonymous_variant 1.0
clpC1 4038419 c.2286T>C synonymous_variant 1.0
clpC1 4038433 c.2272C>T synonymous_variant 1.0
clpC1 4038434 c.2271G>A synonymous_variant 1.0
clpC1 4038444 p.Ala754Lys missense_variant 1.0
clpC1 4038446 c.2259T>C synonymous_variant 1.0
clpC1 4038456 p.Val750Glu missense_variant 1.0
clpC1 4038460 p.Leu749Met missense_variant 1.0
clpC1 4038486 p.Gly740Asn missense_variant 1.0
clpC1 4038489 p.Ala739Gly missense_variant 1.0
clpC1 4038494 c.2211G>C synonymous_variant 1.0
clpC1 4038497 p.Ser736Gln missense_variant 0.75
clpC1 4038530 p.Glu725Asp missense_variant 1.0
clpC1 4038596 c.2109A>G synonymous_variant 1.0
clpC1 4038623 c.2082A>G synonymous_variant 1.0
clpC1 4038640 p.Asp689Asn missense_variant 1.0
embC 4240726 c.864G>C synonymous_variant 1.0
embC 4240789 c.927T>C synonymous_variant 1.0
embC 4240819 c.957A>G synonymous_variant 1.0
embC 4240828 c.966G>A synonymous_variant 1.0
embC 4240831 c.969T>G synonymous_variant 1.0
embC 4241995 c.2133C>G synonymous_variant 1.0
embC 4242002 p.Leu714Val missense_variant 1.0
embC 4242007 c.2145G>A synonymous_variant 1.0
embC 4242011 p.Leu717Val missense_variant 1.0
embC 4242024 p.Val721Ala missense_variant 1.0
embC 4242036 p.Gln725Leu missense_variant 1.0
embC 4242045 p.Ile728Thr missense_variant 1.0
embC 4242047 p.Ser729Asp missense_variant 1.0
embC 4242055 c.2193C>T synonymous_variant 1.0
embC 4242061 c.2199G>C synonymous_variant 1.0
embC 4242070 c.2208T>C synonymous_variant 1.0
embC 4242076 c.2214G>C synonymous_variant 1.0
embC 4242079 c.2217T>C synonymous_variant 1.0
embC 4242085 c.2223A>G synonymous_variant 1.0
embC 4242091 c.2229T>G synonymous_variant 1.0
embC 4242092 c.2230T>C synonymous_variant 1.0
embC 4242095 p.Ala745Thr missense_variant 1.0
embC 4242106 c.2244C>G synonymous_variant 1.0
embB 4248035 p.Val508Ile missense_variant 1.0
embB 4248040 c.1527C>G synonymous_variant 1.0
embB 4248041 p.Ala510Thr missense_variant 1.0
embB 4248044 p.Lys511Ala missense_variant 1.0
embB 4248070 c.1557T>C synonymous_variant 1.0
ubiA 4268969 p.Leu289Val missense_variant 1.0
aftB 4268985 c.-149A>G upstream_gene_variant 1.0
aftB 4268994 c.-158T>G upstream_gene_variant 1.0
aftB 4268999 c.-163C>T upstream_gene_variant 1.0
aftB 4269006 c.-170T>C upstream_gene_variant 1.0
aftB 4269012 c.-176G>C upstream_gene_variant 1.0
aftB 4269027 c.-191C>T upstream_gene_variant 1.0
aftB 4269033 c.-197T>C upstream_gene_variant 1.0
aftB 4269036 c.-200C>G upstream_gene_variant 1.0
aftB 4269042 c.-206G>C upstream_gene_variant 1.0
aftB 4269075 c.-239T>C upstream_gene_variant 1.0