TB-Profiler result

Run: SRR2100815
Summary

Run ID: SRR2100815

Sample name:

Date: 03-04-2023 23:18:42

Number of reads: 4549584

Percentage reads mapped: 99.41

Strain: lineage4;lineage3

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
lineage3 East-African-Indian CAS RD750 0.91
lineage4 Euro-American LAM;T;S;X;H None 0.08
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 0.98
gyrA 9304 p.Gly668Asp missense_variant 0.97
fgd1 491742 c.960T>C synonymous_variant 0.97
rpoB 759746 c.-61C>T upstream_gene_variant 0.96
rpoC 762434 c.-936T>G upstream_gene_variant 0.93
rpoC 763031 c.-339T>C upstream_gene_variant 0.92
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.91
mmpL5 777820 c.661C>T synonymous_variant 0.93
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.91
PPE35 2167926 p.Leu896Ser missense_variant 0.95
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.91
pncA 2289365 c.-125delC upstream_gene_variant 0.89
ahpC 2726105 c.-88G>A upstream_gene_variant 0.93
ald 3086788 c.-32T>C upstream_gene_variant 0.95
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.95
alr 3841473 c.-53G>A upstream_gene_variant 0.87
clpC1 4038857 c.1848C>A synonymous_variant 0.24
clpC1 4039481 c.1224T>G synonymous_variant 0.91
embC 4239842 c.-21C>A upstream_gene_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 0.85
embC 4242425 p.Arg855Gly missense_variant 0.27
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247426 p.Gly305Cys missense_variant 0.92
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.95