TB-Profiler result

Run: ERR4815839
Summary

Run ID: ERR4815839

Sample name:

Date: 01-04-2023 14:05:41

Number of reads: 796267

Percentage reads mapped: 99.46

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 8771 c.1470C>T synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.33
ccsA 620748 c.858T>G synonymous_variant 0.3
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766406 p.Arg1013Cys missense_variant 0.12
rpoC 767155 c.3786C>T synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776337 p.Ala715Val missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304420 p.Ala497Gly missense_variant 0.12
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
PPE35 2170110 p.Phe168Ser missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518323 p.Ser70Asn missense_variant 0.13
kasA 2518406 p.Ala98Thr missense_variant 0.15
kasA 2518711 c.597A>G synonymous_variant 0.13
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
Rv2752c 3065525 p.His223Tyr missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448618 p.Glu39* stop_gained 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642877 p.Lys448Arg missense_variant 1.0
ddn 3987018 c.178_179delCG frameshift_variant 0.1
clpC1 4039645 p.His354Asp missense_variant 0.14
clpC1 4039654 p.Thr351Ser missense_variant 0.19
clpC1 4040127 p.Arg193His missense_variant 0.11
embC 4241653 c.1791C>T synonymous_variant 0.14
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4245986 c.-528G>A upstream_gene_variant 0.13
embA 4246255 p.Leu1008Pro missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407790 p.Ala138Val missense_variant 1.0
gid 4408186 p.Pro6Leu missense_variant 1.0