TB-Profiler result

Run: ERR11068503
Summary

Run ID: ERR11068503

Sample name:

Date: 06-04-2023 15:15:35

Number of reads: 4105186

Percentage reads mapped: 99.56

Strain: lineage4.8.3

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
lineage4.8.3 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
mshA 575495 c.148C>T synonymous_variant 0.22
mshA 575894 p.Val183Leu missense_variant 0.25
mshA 576173 p.Pro276Ser missense_variant 0.17
mshA 576601 p.Ser418Arg missense_variant 0.22
mshA 576687 p.Glu447Ala missense_variant 0.17
ccsA 619871 c.-20G>T upstream_gene_variant 0.22
rpoB 759956 c.150C>A synonymous_variant 1.0
rpoB 762697 p.Ala964Val missense_variant 0.17
rpoC 766504 c.3135G>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304173 p.Val415Met missense_variant 0.1
fbiC 1304481 c.1551T>C synonymous_variant 0.13
fbiC 1305456 c.2526C>T synonymous_variant 0.22
Rv1258c 1406984 c.357A>G synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102238 p.Ile269Val missense_variant 0.11
ndh 2102293 c.750C>T synonymous_variant 0.12
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289169 p.Ala25Thr missense_variant 0.14
pepQ 2859631 p.Ala263Val missense_variant 0.25
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
whiB7 3568431 c.249C>G synonymous_variant 0.33
alr 3841192 p.Val77Ile missense_variant 0.5
rpoA 3878641 c.-135delG upstream_gene_variant 0.12
embC 4240457 p.Gly199Trp missense_variant 0.1
embC 4240472 p.Leu204Met missense_variant 0.11
embC 4240636 c.774G>A synonymous_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243481 c.249C>A synonymous_variant 0.12
embA 4243530 p.Thr100Ala missense_variant 0.17
embA 4244910 c.1678C>T synonymous_variant 0.2
ethR 4328039 p.Arg164His missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0