TB-Profiler result

Run: SRR6797399
Summary

Run ID: SRR6797399

Sample name:

Date: 04-04-2023 16:08:39

Number of reads: 3854928

Percentage reads mapped: 99.55

Strain: lineage3;lineage1

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 0.93
lineage1 Indo-Oceanic EAI RD239 0.06
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 9143 c.1842T>C synonymous_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 0.95
rpoC 762434 c.-936T>G upstream_gene_variant 0.91
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 0.16
rpoC 763886 c.517C>A synonymous_variant 0.17
rpoC 766582 c.3213C>A synonymous_variant 0.95
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
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 2154362 p.Phe584Val missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169158 c.1455G>A synonymous_variant 0.9
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.89
pncA 2289365 c.-125delC upstream_gene_variant 0.86
kasA 2518132 c.18C>T synonymous_variant 0.11
ahpC 2726105 c.-88G>A upstream_gene_variant 0.86
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640377 c.-166G>A upstream_gene_variant 0.84
alr 3841253 c.168C>T synonymous_variant 0.12
alr 3841277 c.144C>T synonymous_variant 0.11
alr 3841473 c.-53G>A upstream_gene_variant 0.95
rpoA 3878559 c.-53delC upstream_gene_variant 0.2
clpC1 4040517 p.Val63Ala missense_variant 0.12
embC 4242075 p.Arg738Gln missense_variant 0.85
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 0.11
aftB 4269606 c.-770T>C upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407712 p.Gly164Val missense_variant 0.92