TB-Profiler result

Run: SRR10272562
Summary

Run ID: SRR10272562

Sample name:

Date: 02-04-2023 16:41:39

Number of reads: 974107

Percentage reads mapped: 86.11

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759615 c.-192A>C upstream_gene_variant 0.36
rpoB 761022 p.Ile406Phe missense_variant 0.12
rpoB 761715 p.Val637Ile missense_variant 0.14
rpoC 764540 p.Val391Phe missense_variant 0.12
rpoC 766061 p.Val898Ile missense_variant 0.12
rpoC 766064 p.Val899Ile missense_variant 0.12
rpoC 766076 p.Glu903Gln missense_variant 0.13
rpoC 766080 p.Arg904Leu missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800696 c.-113C>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674870 p.Asp223Glu missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918001 p.Gln21Arg missense_variant 0.29
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169125 p.Val496Ile missense_variant 0.17
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.47
PPE35 2170053 p.Thr187Ser missense_variant 0.48
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518348 c.234A>T synonymous_variant 0.11
kasA 2518801 c.687G>A synonymous_variant 0.22
pepQ 2859399 c.1020C>T synonymous_variant 0.12
ribD 2987404 p.Arg189Leu missense_variant 0.12
thyA 3074654 c.-183T>G upstream_gene_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448412 c.-92G>A upstream_gene_variant 0.18
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3448654 p.Pro51Ala missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612155 p.Arg321Leu missense_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
clpC1 4039829 p.Leu292Ile missense_variant 0.13
embC 4242401 p.Arg847Ser missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242648 p.Leu929Arg missense_variant 0.23
embA 4243540 p.Ala103Val missense_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.22
embB 4246555 c.42G>C synonymous_variant 0.24
embB 4246556 p.Ala15Pro missense_variant 0.24
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407534 c.669G>A synonymous_variant 0.14
gid 4408115 p.Gly30Cys missense_variant 0.13