TB-Profiler result

Run: ERR4827466
Summary

Run ID: ERR4827466

Sample name:

Date: 01-04-2023 18:04:53

Number of reads: 849583

Percentage reads mapped: 99.74

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9105 p.Phe602Val missense_variant 1.0
fgd1 491371 p.Gly197Cys missense_variant 0.15
mshA 576108 p.Ala254Gly missense_variant 0.3
ccsA 620163 c.273G>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407142 p.Asp67Tyr missense_variant 0.12
embR 1417217 p.Ile44Thr missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673349 c.-91G>C upstream_gene_variant 0.12
fabG1 1673359 c.-81T>C upstream_gene_variant 0.12
fabG1 1673361 c.-79C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.34
rpsA 1834716 p.Phe392Ser missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918068 c.129C>A synonymous_variant 1.0
ndh 2102720 p.Tyr108Phe missense_variant 0.14
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.3
PPE35 2170053 p.Thr187Ser missense_variant 0.26
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518716 p.Pro201Leu missense_variant 0.17
ribD 2986793 c.-46A>G upstream_gene_variant 0.12
Rv3236c 3613092 p.Phe9Leu missense_variant 0.11
clpC1 4038587 c.2118C>A synonymous_variant 0.2
panD 4044382 c.-101A>T upstream_gene_variant 0.12
embC 4240398 p.His179Arg missense_variant 1.0
embC 4241054 p.Pro398Ser missense_variant 0.13
embC 4241125 c.1263G>A synonymous_variant 0.12
embC 4241386 c.1524C>T synonymous_variant 0.11
embC 4241536 c.1674A>T synonymous_variant 0.12
embC 4242620 p.Val920Ile missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243317 p.Gly29Cys missense_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.36
embB 4246548 p.Pro12Gln missense_variant 0.42
embB 4246555 c.42G>C synonymous_variant 0.4
embB 4246556 p.Ala15Pro missense_variant 0.4
embB 4247023 c.510G>C synonymous_variant 0.21
ubiA 4269864 c.-31C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0