TB-Profiler result

Run: ERR9786508
Summary

Run ID: ERR9786508

Sample name:

Date: 02-04-2023 12:32:44

Number of reads: 4215198

Percentage reads mapped: 91.53

Strain: lineage4.3.4.1;lineage4.3.3

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 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.18
lineage4.3.4 Euro-American (LAM) LAM RD174 0.83
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 0.85
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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8334 p.Met345Val missense_variant 0.81
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761153 c.1347G>C synonymous_variant 0.15
rpoB 761165 c.1359G>C synonymous_variant 0.17
rpoB 761180 c.1374A>C synonymous_variant 0.18
rpoB 761189 c.1383T>C synonymous_variant 0.16
rpoB 761195 c.1389G>C synonymous_variant 0.15
rpoB 761207 c.1401C>T synonymous_variant 0.15
rpoB 761213 c.1407G>C synonymous_variant 0.15
rpoB 761354 c.1548C>T synonymous_variant 0.14
rpoC 764764 c.1395T>C synonymous_variant 0.15
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765937 c.2568T>C synonymous_variant 0.15
rpoC 765967 c.2598C>T synonymous_variant 0.14
rpoC 766861 c.3492G>C synonymous_variant 0.15
rpoC 766864 c.3495G>C synonymous_variant 0.16
rpoC 766876 c.3507C>T synonymous_variant 0.16
rpoC 766882 c.3513C>T synonymous_variant 0.16
rpoC 766900 c.3531T>C synonymous_variant 0.16
rpoC 766933 c.3564A>G synonymous_variant 0.17
rpoC 766945 c.3576A>G synonymous_variant 0.19
rpoC 766963 c.3594T>C synonymous_variant 0.18
rpoC 766972 c.3603G>C synonymous_variant 0.17
rpoC 766996 c.3627C>T synonymous_variant 0.17
rpoC 767009 p.Ser1214Thr missense_variant 0.14
rpoC 767033 p.Ser1222Thr missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833841 c.300C>G synonymous_variant 0.14
rpsA 1833847 c.306C>G synonymous_variant 0.14
rpsA 1833856 c.315A>G synonymous_variant 0.15
rpsA 1833874 c.333T>C synonymous_variant 0.16
rpsA 1834021 c.480C>T synonymous_variant 0.13
rpsA 1834099 c.558C>G synonymous_variant 0.14
rpsA 1834102 c.561T>C synonymous_variant 0.14
rpsA 1834105 c.564C>G synonymous_variant 0.14
rpsA 1834108 c.567C>G synonymous_variant 0.14
rpsA 1834123 c.582C>G synonymous_variant 0.14
rpsA 1834513 c.972C>G synonymous_variant 0.15
rpsA 1834528 c.987T>C synonymous_variant 0.14
rpsA 1834540 c.999G>C synonymous_variant 0.16
rpsA 1834546 c.1005T>C synonymous_variant 0.15
rpsA 1834555 c.1014T>G synonymous_variant 0.16
rpsA 1834606 c.1065C>G synonymous_variant 0.16
rpsA 1834609 c.1068T>C synonymous_variant 0.16
rpsA 1834633 c.1092A>G synonymous_variant 0.17
rpsA 1834639 c.1098T>C synonymous_variant 0.17
rpsA 1834654 p.Glu371Asp missense_variant 0.16
rpsA 1834690 c.1149T>C synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222854 p.Ile104Thr missense_variant 0.81
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518624 c.510C>G synonymous_variant 0.16
kasA 2518639 c.525G>C synonymous_variant 0.18
kasA 2518657 c.543G>C synonymous_variant 0.18
kasA 2518672 c.558G>C synonymous_variant 0.16
kasA 2518678 c.564C>T synonymous_variant 0.16
kasA 2518684 c.570C>G synonymous_variant 0.17
kasA 2518696 c.582C>G synonymous_variant 0.17
kasA 2518702 c.588C>T synonymous_variant 0.17
kasA 2518705 c.591T>C synonymous_variant 0.16
kasA 2518711 c.597A>G synonymous_variant 0.17
kasA 2518714 c.600A>C synonymous_variant 0.17
kasA 2518732 c.618C>G synonymous_variant 0.15
kasA 2518738 c.624G>C synonymous_variant 0.16
kasA 2518744 c.630C>T synonymous_variant 0.15
kasA 2518747 c.633C>G synonymous_variant 0.14
kasA 2518768 c.654C>T synonymous_variant 0.14
kasA 2518777 c.663C>T synonymous_variant 0.14
kasA 2518919 p.Gly269Ser missense_variant 0.15
thyA 3073868 p.Thr202Ala missense_variant 0.95
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.8
rpoA 3878217 c.291A>G synonymous_variant 0.14
rpoA 3878226 c.282C>G synonymous_variant 0.16
rpoA 3878232 c.276G>C synonymous_variant 0.18
rpoA 3878247 c.261G>C synonymous_variant 0.17
rpoA 3878250 c.258C>G synonymous_variant 0.17
rpoA 3878271 c.237T>C synonymous_variant 0.19
rpoA 3878284 p.Glu75Ala missense_variant 0.21
rpoA 3878292 c.216T>C synonymous_variant 0.2
rpoA 3878298 c.210A>G synonymous_variant 0.18
rpoA 3878304 c.204G>C synonymous_variant 0.18
rpoA 3878310 c.198G>C synonymous_variant 0.19
rpoA 3878313 c.195G>C synonymous_variant 0.18
rpoA 3878322 c.186A>G synonymous_variant 0.19
rpoA 3878331 c.177A>G synonymous_variant 0.17
rpoA 3878334 c.174T>C synonymous_variant 0.18
rpoA 3878337 c.171T>C synonymous_variant 0.18
rpoA 3878346 c.162T>C synonymous_variant 0.19
rpoA 3878364 c.144A>C synonymous_variant 0.18
rpoA 3878367 c.141C>G synonymous_variant 0.18
rpoA 3878376 c.132G>C synonymous_variant 0.18
rpoA 3878385 c.123C>G synonymous_variant 0.16
rpoA 3878388 c.120C>G synonymous_variant 0.16
rpoA 3878391 c.117T>C synonymous_variant 0.16
rpoA 3878415 c.93C>T synonymous_variant 0.15
rpoA 3878424 c.84G>C synonymous_variant 0.17
rpoA 3878436 c.72A>G synonymous_variant 0.17
rpoA 3878442 c.66G>C synonymous_variant 0.15
rpoA 3878484 c.24C>A synonymous_variant 0.13
rpoA 3878496 c.12A>T synonymous_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 0.96
clpC1 4039991 c.714G>A synonymous_variant 0.81
embC 4241567 p.Ile569Val missense_variant 0.15
embC 4241572 c.1710C>G synonymous_variant 0.15
embC 4241578 c.1716G>C synonymous_variant 0.15
embC 4241584 c.1722T>C synonymous_variant 0.15
embC 4241587 c.1725C>G synonymous_variant 0.15
embC 4241591 p.Leu577Val missense_variant 0.15
embC 4241611 c.1749G>C synonymous_variant 0.16
embC 4241614 c.1752A>C synonymous_variant 0.17
embC 4241626 c.1764T>C synonymous_variant 0.16
embC 4241635 c.1773G>C synonymous_variant 0.15
embC 4241644 c.1782G>C synonymous_variant 0.14
embC 4241648 c.1786_1788delTTGinsCTC synonymous_variant 0.14
embC 4242182 p.Ala774Ser missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247893 c.1380C>T synonymous_variant 0.13
embB 4247914 c.1401G>C synonymous_variant 0.15
embB 4247932 c.1419C>G synonymous_variant 0.14
embB 4248626 p.Ala705Pro missense_variant 0.21
whiB6 4338555 c.-34G>A upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0