TB-Profiler result

Run: SRR13837985
Summary

Run ID: SRR13837985

Sample name:

Date: 03-04-2023 09:23:40

Number of reads: 894165

Percentage reads mapped: 96.37

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 1.0
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
gyrB 6624 p.Ser462* stop_gained 1.0
gyrA 7285 c.-17T>C upstream_gene_variant 1.0
gyrA 8798 c.1497C>T synonymous_variant 1.0
rpoC 764438 c.1069_1070insA frameshift_variant 0.93
rpoC 766381 c.3012C>T synonymous_variant 0.11
rpoC 766426 c.3057C>T synonymous_variant 0.11
rpoC 767059 c.3690T>G synonymous_variant 0.13
rpoC 767062 c.3693C>A synonymous_variant 0.13
mmpL5 775795 p.Ala896Ser missense_variant 1.0
fbiC 1303593 c.663G>A synonymous_variant 0.97
fbiC 1304634 c.1704C>G synonymous_variant 0.13
fbiC 1304640 c.1710A>C synonymous_variant 0.12
fbiC 1304646 c.1716T>C synonymous_variant 0.12
fbiC 1304658 c.1728C>G synonymous_variant 0.12
fbiC 1304661 c.1731C>T synonymous_variant 0.12
fbiC 1304670 c.1740G>C synonymous_variant 0.14
fbiC 1304671 p.Val581Thr missense_variant 0.14
fbiC 1304675 p.Gly582Asp missense_variant 0.13
fbiC 1304691 c.1761G>C synonymous_variant 0.15
fbiC 1304694 c.1764A>C synonymous_variant 0.16
fbiC 1304703 c.1773C>G synonymous_variant 0.17
fbiC 1304711 p.Ala594Glu missense_variant 0.12
fbiC 1304715 c.1785G>C synonymous_variant 0.12
fbiC 1304724 c.1794A>G synonymous_variant 0.12
fbiC 1304727 c.1797A>G synonymous_variant 0.12
fbiC 1304742 c.1812T>C synonymous_variant 0.19
fbiC 1304748 c.1818T>C synonymous_variant 0.14
embR 1416428 c.919_920insT frameshift_variant 1.0
rrs 1471798 n.-48G>A upstream_gene_variant 1.0
rrs 1472913 n.1068G>C non_coding_transcript_exon_variant 0.95
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.12
rrl 1476167 n.2510T>A non_coding_transcript_exon_variant 1.0
inhA 1674226 p.Arg9Trp missense_variant 1.0
rpsA 1833352 c.-190C>A upstream_gene_variant 1.0
rpsA 1833710 p.Tyr57Asp missense_variant 0.94
rpsA 1834711 c.1170C>T synonymous_variant 0.96
ndh 2102326 c.717G>T synonymous_variant 1.0
Rv1979c 2222739 c.426C>A synonymous_variant 1.0
Rv1979c 2222936 p.Ala77Thr missense_variant 1.0
eis 2714217 c.1115dupC frameshift_variant 1.0
eis 2714361 c.972C>A synonymous_variant 1.0
pepQ 2859813 p.Ile202Met missense_variant 1.0
pepQ 2860286 p.Val45Leu missense_variant 1.0
ribD 2987503 p.Gly222Val missense_variant 1.0
ald 3087394 p.Ala192Val missense_variant 1.0
ald 3087464 c.645C>T synonymous_variant 1.0
ald 3087512 c.693T>A synonymous_variant 1.0
embC 4241874 p.Leu671Arg missense_variant 1.0
embC 4242816 p.Trp985* stop_gained 1.0
embB 4248199 c.1686A>G synonymous_variant 0.11
embB 4248304 c.1791G>C synonymous_variant 0.11
embB 4248365 p.Val618Met missense_variant 0.96
aftB 4267893 p.Ile315Ser missense_variant 1.0
aftB 4268516 c.321A>G synonymous_variant 1.0
ethR 4326691 c.-858C>A upstream_gene_variant 1.0