TB-Profiler result

Run: SRR3732702
Summary

Run ID: SRR3732702

Sample name:

Date: 04-04-2023 05:38:04

Number of reads: 169435

Percentage reads mapped: 98.86

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 0.97
lineage4.9 Euro-American (H37Rv-like) T1 None 0.96
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491190 c.408G>T synonymous_variant 0.67
mshA 575907 p.Ala187Val missense_variant 1.0
rpoB 760240 p.Thr145Met missense_variant 0.5
rpoB 760272 p.Glu156Lys missense_variant 0.33
rpoB 761171 c.1365C>T synonymous_variant 1.0
rpoB 762683 p.Glu959Asp missense_variant 0.5
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765820 c.2451G>T synonymous_variant 1.0
mmpL5 777695 c.786G>T synonymous_variant 1.0
fbiC 1303616 p.Ala229Val missense_variant 1.0
fbiC 1304853 c.1923C>A synonymous_variant 0.67
fbiC 1305187 p.Leu753Met missense_variant 0.5
Rv1258c 1406228 c.1113C>A synonymous_variant 0.4
embR 1416201 p.Gly383Trp missense_variant 0.67
rrl 1473729 n.72T>C non_coding_transcript_exon_variant 1.0
rrl 1474150 n.493C>A non_coding_transcript_exon_variant 1.0
rrl 1476596 n.2939C>A non_coding_transcript_exon_variant 1.0
rpsA 1833768 p.Pro76His missense_variant 1.0
tlyA 1917828 c.-112G>T upstream_gene_variant 0.67
katG 2155269 c.843C>A synonymous_variant 1.0
PPE35 2168776 p.Pro613Thr missense_variant 1.0
PPE35 2169099 p.Gly505Val missense_variant 1.0
Rv1979c 2222555 p.Pro204Thr missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289415 c.-174C>A upstream_gene_variant 0.33
ahpC 2726016 c.-177C>T upstream_gene_variant 0.33
ahpC 2726642 c.450C>A synonymous_variant 0.67
folC 2746828 c.771C>A synonymous_variant 0.5
pepQ 2860200 c.219G>T synonymous_variant 1.0
ribD 2987294 c.456G>T synonymous_variant 1.0
Rv2752c 3065549 p.Glu215* stop_gained 1.0
thyX 3067888 p.Pro20Thr missense_variant 0.67
ald 3086997 p.Thr60Gly missense_variant 1.0
Rv3083 3449058 c.555C>T synonymous_variant 0.5
Rv3083 3449501 p.Ser333Tyr missense_variant 0.29
fprA 3474468 c.462C>A synonymous_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640364 c.-179G>T upstream_gene_variant 0.4
fbiB 3642214 p.Ser227Leu missense_variant 1.0
fbiB 3642523 p.Ala330Val missense_variant 1.0
alr 3841307 c.114C>A synonymous_variant 0.5
rpoA 3877751 p.Asp253Tyr missense_variant 0.33
embC 4241927 p.Arg689* stop_gained 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4245824 c.-690G>A upstream_gene_variant 1.0
embB 4248136 c.1623C>T synonymous_variant 0.5
aftB 4267781 c.1056C>A synonymous_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0