TB-Profiler result

Run: ERR4812831

Summary

Run ID: ERR4812831

Sample name:

Date: 01-04-2023 12:21:43

Number of reads: 1043971

Percentage reads mapped: 99.65

Strain: lineage4

Drug-resistance: Other


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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
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
embA 4243217 c.-16C>T upstream_gene_variant 0.4 ethambutol
ethA 4326488 p.Ser329Leu missense_variant 0.12 ethionamide
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576294 p.Ala316Val missense_variant 0.67
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761516 c.1710G>A synonymous_variant 0.25
rpoB 762729 p.Gln975Lys missense_variant 0.67
rpoC 764580 p.Asp404Val missense_variant 0.17
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765971 p.Ala868Thr missense_variant 0.12
rpoC 767084 p.Asn1239Asp missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775651 c.2830C>A synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407278 c.63G>T synonymous_variant 0.29
Rv1258c 1407465 c.-125G>T upstream_gene_variant 0.33
embR 1416667 c.681C>A synonymous_variant 0.12
embR 1417093 c.255C>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472343 n.498C>A non_coding_transcript_exon_variant 0.12
rrs 1472720 n.875C>A non_coding_transcript_exon_variant 0.2
rrl 1473450 n.-208C>T upstream_gene_variant 0.11
inhA 1674475 p.Val92Leu missense_variant 0.13
rpsA 1834978 c.1437C>A synonymous_variant 0.33
katG 2156561 c.-450T>C upstream_gene_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518701 p.Gly196Val missense_variant 0.5
eis 2715229 p.Ala35Val missense_variant 0.14
folC 2746756 c.843C>A synonymous_variant 0.4
folC 2746926 p.Asp225Asn missense_variant 0.22
pepQ 2859800 p.Pro207Thr missense_variant 0.4
ribD 2987525 c.687G>T synonymous_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449295 c.792G>T synonymous_variant 0.12
fprA 3473902 c.-105C>A upstream_gene_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474666 c.660G>T synonymous_variant 0.12
Rv3236c 3611959 c.1158G>T stop_lost&splice_region_variant 0.18
Rv3236c 3612533 p.Ala195Glu missense_variant 0.17
fbiB 3641733 p.Pro67Thr missense_variant 0.17
fbiB 3642381 p.Ala283Ser missense_variant 0.67
fbiB 3642731 c.1197C>A synonymous_variant 0.4
panD 4044387 c.-106G>A upstream_gene_variant 0.29
embC 4240210 c.348C>T synonymous_variant 0.4
embC 4242057 p.Pro732Leu missense_variant 0.15
embA 4242736 c.-497C>A upstream_gene_variant 0.4
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243778 p.Gln182His missense_variant 0.29
embA 4245520 p.Pro763Gln missense_variant 0.5
embB 4249470 p.Leu986Pro missense_variant 0.18
embB 4249522 c.3009C>A synonymous_variant 0.15
ubiA 4269714 p.Leu40Phe missense_variant 0.5
ubiA 4269948 c.-115G>T upstream_gene_variant 0.4
ethR 4326577 c.-972G>A upstream_gene_variant 0.12
ethR 4327997 p.Ala150Asp missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407733 p.Gly157Glu missense_variant 0.12