TB-Profiler result

Run: SRR7585410
Summary

Run ID: SRR7585410

Sample name:

Date: 04-04-2023 19:46:10

Number of reads: 923108

Percentage reads mapped: 99.13

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
embB 4247429 p.Met306Val missense_variant 1.0 ethambutol
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 491041 p.Ala87Ser missense_variant 0.18
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.18
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 760544 c.738C>T synonymous_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762456 p.Gly884Ser missense_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776216 c.2265G>A synonymous_variant 0.15
mmpL5 776592 p.Leu630Pro missense_variant 0.12
mmpR5 779296 p.Gly103Ser missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475380 n.1723C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155820 p.Tyr98Asp missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169122 c.1491C>G synonymous_variant 0.17
PPE35 2169137 c.1476G>A synonymous_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
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726117 c.-76T>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448883 p.Glu127Gly missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
ddn 3986853 p.Ser4Pro missense_variant 0.1
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.15
aftB 4267423 c.1413delG frameshift_variant 0.11
aftB 4267619 c.1218C>A synonymous_variant 0.12
ethA 4327950 c.-477G>A upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407655 p.Ala183Glu missense_variant 1.0