TB-Profiler result

Run: ERR11049927

Summary

Run ID: ERR11049927

Sample name:

Date: 02-04-2023 03:28:44

Number of reads: 4161619

Percentage reads mapped: 99.64

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 9647 c.2346C>G synonymous_variant 0.18
mshA 576442 p.Cys365Trp missense_variant 0.41
mshA 576456 p.Val370Gly missense_variant 0.37
mshA 576616 c.1269G>C synonymous_variant 0.18
ccsA 620472 c.582C>T synonymous_variant 1.0
rpoC 764367 p.Gly333Ala missense_variant 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.26
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416441 c.907C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475442 n.1785C>T non_coding_transcript_exon_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.18
fabG1 1673553 p.Asp38Glu missense_variant 0.28
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102817 p.Leu76Val missense_variant 0.13
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.33
pepQ 2860159 p.Ala87Gly missense_variant 0.2
Rv2752c 3064823 p.Val457Leu missense_variant 0.2
ald 3087816 p.Cys333Gly missense_variant 0.16
fbiD 3339734 p.Ala206Gly missense_variant 0.29
fbiD 3339751 p.Ala212Pro missense_variant 0.88
Rv3083 3448453 c.-51G>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568425 c.255T>C synonymous_variant 0.22
whiB7 3568431 c.249C>G synonymous_variant 0.33
rpoA 3878597 c.-90G>C upstream_gene_variant 0.75
rpoA 3878641 c.-134C>G upstream_gene_variant 1.0
clpC1 4040235 p.Gly157Ala missense_variant 0.2
embC 4240409 p.Pro183Ala missense_variant 0.27
embC 4240415 p.Arg185Cys missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243682 c.450T>G synonymous_variant 0.15
embB 4246527 p.Ala5Gly missense_variant 0.36
embB 4248328 c.1815G>C synonymous_variant 0.19
whiB6 4338200 p.Asp108His missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0