TB-Profiler result

Run: SRR6896306

Summary

Run ID: SRR6896306

Sample name:

Date: 04-04-2023 18:01:56

Number of reads: 158887

Percentage reads mapped: 99.68

Strain: lineage4

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
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
gyrB 5096 c.-144A>G upstream_gene_variant 0.2
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 6973 c.-329G>A upstream_gene_variant 0.14
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7631 c.330G>A synonymous_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490744 c.-39T>C upstream_gene_variant 0.13
fgd1 491264 p.Ser161* stop_gained 0.25
fgd1 491498 p.Pro239Gln missense_variant 0.33
mshA 576500 p.Ile385Leu missense_variant 0.5
ccsA 620229 c.339C>T synonymous_variant 0.4
ccsA 620530 p.Gly214Cys missense_variant 0.29
rpoB 760247 p.Phe147Leu missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776275 p.Ala736Ser missense_variant 0.4
mmpL5 776300 p.Met727Ile missense_variant 0.4
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288930 c.312C>T synonymous_variant 0.17
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474458 c.453delA frameshift_variant 0.22
whiB7 3568693 c.-14A>C upstream_gene_variant 0.29
Rv3236c 3612263 p.Gly285Val missense_variant 0.29
rpoA 3877605 c.903G>A synonymous_variant 0.25
ddn 3986919 p.Thr26Pro missense_variant 0.67
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267265 c.1572C>T synonymous_variant 0.33
whiB6 4338230 c.292C>T synonymous_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0