TB-Profiler result

Run: SRR19428536
Summary

Run ID: SRR19428536

Sample name:

Date: 03-04-2023 21:39:34

Number of reads: 1730269

Percentage reads mapped: 99.3

Strain: 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 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
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575216 c.-132C>A upstream_gene_variant 0.14
mshA 575640 p.Pro98Gln missense_variant 0.17
mshA 576303 p.Leu319Pro missense_variant 0.12
mshA 576404 p.Glu353* stop_gained 0.12
ccsA 620184 c.294C>A synonymous_variant 0.29
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766076 p.Glu903* stop_gained 0.33
rpoC 766504 c.3135G>A synonymous_variant 0.12
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
fbiC 1304349 p.Trp473Cys missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834900 c.1359C>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170210 p.Ala135Ser missense_variant 0.15
PPE35 2170527 p.Ser29Val missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518780 p.Glu222Asp missense_variant 0.11
eis 2715093 c.240C>T synonymous_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746271 p.Ala443Val missense_variant 0.12
folC 2747346 p.Leu85Met missense_variant 0.12
Rv2752c 3067035 c.-844C>A upstream_gene_variant 1.0
thyX 3067443 p.Arg168Leu missense_variant 1.0
thyX 3067867 p.Thr27Ala missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840779 c.642G>C synonymous_variant 1.0
clpC1 4040126 c.579C>A synonymous_variant 0.13
embC 4240572 p.Gly237Val missense_variant 0.33
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4243734 p.Pro168Thr missense_variant 0.11
embA 4243823 c.591G>T synonymous_variant 0.29
aftB 4268880 c.-44C>T upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0