TB-Profiler result

Run: ERR2514065

Summary

Run ID: ERR2514065

Sample name:

Date: 31-03-2023 20:06:05

Number of reads: 5611053

Percentage reads mapped: 99.46

Strain: lineage3

Drug-resistance: Other


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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
gid 4408100 c.102delG frameshift_variant 1.0 streptomycin
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 6674 p.Leu479Ile missense_variant 1.0
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 575821 c.474G>A synonymous_variant 0.17
ccsA 619866 c.-25C>A upstream_gene_variant 0.14
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762743 c.-627G>A upstream_gene_variant 0.14
rpoB 762746 p.Gln980His missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.99
mmpS5 778662 p.Asp82His 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 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2714848 p.Ser162Asn missense_variant 0.15
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ribD 2987337 p.Gly167Cys missense_variant 0.12
Rv2752c 3065825 p.Pro123Ser missense_variant 1.0
thyX 3067428 p.Ala173Val missense_variant 1.0
thyX 3067540 p.Ala136Thr missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474942 c.936G>A synonymous_variant 0.22
fprA 3475302 c.1296C>T synonymous_variant 0.12
fprA 3475373 p.Gly456Asp missense_variant 0.33
embC 4242075 p.Arg738Gln missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243643 c.411C>T synonymous_variant 0.12
embB 4247693 p.Ala394Thr missense_variant 0.5
embB 4247731 c.1218C>T synonymous_variant 0.17
embB 4247790 p.Ser426Asn missense_variant 0.22
embB 4249337 p.Asp942His missense_variant 0.11
whiB6 4338426 c.96C>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338704 c.-183C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0