TB-Profiler result

Run: SRR7131240
Summary

Run ID: SRR7131240

Sample name:

Date: 04-04-2023 18:50:28

Number of reads: 1926856

Percentage reads mapped: 99.99

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 6815 p.Lys526Gln missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 762090 p.Glu762* stop_gained 0.2
rpoB 762858 p.Thr1018Ala missense_variant 0.27
rpoC 767051 p.Glu1228* stop_gained 0.18
mmpL5 775616 c.2865G>A synonymous_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801200 p.Gly131Asp missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.17
rrs 1472390 n.545T>A non_coding_transcript_exon_variant 0.16
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.16
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.28
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918377 c.438T>C synonymous_variant 0.18
katG 2153970 p.Asp714Glu missense_variant 0.13
katG 2154212 p.Leu634Ile missense_variant 0.12
katG 2156263 c.-152A>G upstream_gene_variant 1.0
PPE35 2167963 p.Gly884Arg missense_variant 0.12
PPE35 2168143 p.Phe824Leu missense_variant 0.13
PPE35 2169609 p.Gly335Ala missense_variant 0.11
PPE35 2169902 p.Leu237Phe missense_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.69
PPE35 2170053 p.Thr187Ser missense_variant 0.69
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223299 c.-135G>A upstream_gene_variant 0.12
eis 2714431 p.Val301Glu missense_variant 0.16
eis 2714846 p.Val163Ile missense_variant 0.25
folC 2746164 c.1435C>A synonymous_variant 0.17
folC 2746673 p.Val309Ala missense_variant 0.19
Rv3236c 3612554 p.Ala188Val missense_variant 0.17
alr 3840764 c.657G>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.11
embB 4246548 p.Pro12Gln missense_variant 0.12
embB 4246555 c.42G>C synonymous_variant 0.17
embB 4246556 p.Ala15Pro missense_variant 0.16
embB 4249681 p.Asp1056Glu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407902 p.Leu101Phe missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0