TB-Profiler result

Run: SRR6982437
Summary

Run ID: SRR6982437

Sample name:

Date: 04-04-2023 18:37:26

Number of reads: 496273

Percentage reads mapped: 99.26

Strain: lineage4.3.2.1

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 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 0.96
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575623 c.276C>G synonymous_variant 1.0
mshA 576438 p.Ala364Val missense_variant 0.17
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766678 p.Asp1103Glu missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775897 c.2581_2583delGAG conservative_inframe_deletion 0.12
mmpR5 779026 p.Glu13Gln missense_variant 0.11
mmpR5 779461 p.Ser158Gly missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302921 c.-10G>A upstream_gene_variant 0.1
fbiC 1305310 c.2382delG frameshift_variant 0.11
Rv1258c 1406388 p.Cys318Phe missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
inhA 1673535 c.-667A>G upstream_gene_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154360 c.1752T>C synonymous_variant 0.12
PPE35 2170529 c.84G>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518593 p.Ala160Val missense_variant 0.2
ribD 2987490 p.Tyr218His missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642047 c.513G>C synonymous_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040837 c.-133T>C upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249566 p.Tyr1018Cys missense_variant 0.25
aftB 4267321 p.Asp506Tyr missense_variant 0.22
aftB 4267670 c.1167G>A synonymous_variant 0.22
whiB6 4338234 c.288A>T synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0