TB-Profiler result

Run: SRR19392938
Summary

Run ID: SRR19392938

Sample name:

Date: 03-04-2023 21:37:06

Number of reads: 1557342

Percentage reads mapped: 99.64

Strain: lineage4

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
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 6233 p.Ala332Thr missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491318 p.Pro179Leu missense_variant 0.25
mshA 575947 c.600G>T synonymous_variant 0.2
mshA 576542 p.Ala399Ser missense_variant 0.25
rpoB 761690 c.1884G>T synonymous_variant 0.15
rpoB 762712 p.Pro969Leu missense_variant 0.14
rpoB 762719 p.Phe971Leu missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303701 c.771C>T synonymous_variant 1.0
fbiC 1304001 c.1071C>A synonymous_variant 0.18
Rv1258c 1407143 c.198C>A synonymous_variant 0.17
Rv1258c 1407522 c.-182C>A upstream_gene_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918098 c.159C>T synonymous_variant 0.33
katG 2155766 p.His116Asn missense_variant 0.29
PPE35 2170067 c.546C>T synonymous_variant 1.0
PPE35 2170312 p.Arg101Trp missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518630 c.516G>T synonymous_variant 0.22
folC 2746497 p.His368Asn missense_variant 0.14
pepQ 2859596 p.Ala275Ser missense_variant 0.18
ribD 2987289 p.Asp151Tyr missense_variant 0.25
ribD 2987393 c.555C>A synonymous_variant 0.15
thyX 3067280 c.666G>T synonymous_variant 0.5
thyX 3067490 c.456C>A synonymous_variant 0.5
ald 3087305 c.486G>T synonymous_variant 0.14
fbiD 3339409 p.Ala98Ser missense_variant 0.14
fbiD 3339585 c.468C>A synonymous_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiB 3641877 c.343C>A synonymous_variant 0.13
fbiB 3641991 p.Gly153* stop_gained 0.5
fbiB 3642024 p.Ala164Ser missense_variant 0.33
fbiB 3642211 p.Gly226Val missense_variant 1.0
alr 3840764 c.657G>C synonymous_variant 1.0
clpC1 4038221 c.2484C>A synonymous_variant 0.14
embC 4240491 p.Pro210Arg missense_variant 0.17
embC 4241641 p.Phe593Leu missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242677 p.Thr939Ser missense_variant 0.13
embA 4243487 c.255C>T synonymous_variant 0.13
embA 4244216 c.984C>A synonymous_variant 0.25
embA 4244678 c.1446G>T synonymous_variant 0.17
embA 4245487 p.Pro752Gln missense_variant 0.18
embB 4245554 c.-960C>A upstream_gene_variant 0.2
embA 4245557 p.Glu775Asp missense_variant 0.2
embB 4245662 c.-852G>T upstream_gene_variant 0.17
embB 4246774 c.261G>A synonymous_variant 0.33
embB 4247008 p.Lys165Asn missense_variant 0.17
whiB6 4338208 p.Pro105Gln missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0