TB-Profiler result

Run: ERR11049976
Summary

Run ID: ERR11049976

Sample name:

Date: 02-04-2023 05:41:19

Number of reads: 3173155

Percentage reads mapped: 99.48

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
rpsL 781687 p.Lys43Arg missense_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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.99
gyrA 9647 c.2346C>G synonymous_variant 0.26
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576442 p.Cys365Trp missense_variant 0.18
mshA 576606 p.Ala420Gly missense_variant 0.28
mshA 576609 p.Ala421Gly missense_variant 0.28
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 764367 p.Gly333Ala missense_variant 0.23
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.27
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406221 p.Ala374Pro missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.16
fabG1 1673553 p.Asp38Glu missense_variant 0.37
tlyA 1917851 c.-89C>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.98
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155909 p.Val68Gly missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.29
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
kasA 2519071 p.Asp319Glu missense_variant 0.29
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.16
Rv2752c 3064823 p.Val457Leu missense_variant 0.26
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.78
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568431 p.Arg83Gly missense_variant 0.5
rpoA 3878641 c.-134C>G upstream_gene_variant 0.92
clpC1 4040550 p.Leu52Trp missense_variant 0.16
embC 4240409 p.Pro183Ala missense_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.53
embB 4246584 p.Arg24Pro missense_variant 0.2
embB 4247016 p.Ser168Trp missense_variant 0.16
embB 4248328 c.1815G>C synonymous_variant 0.21
whiB6 4338200 p.Asp108His missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0