TB-Profiler result

Run: ERR502535
Summary

Run ID: ERR502535

Sample name:

Date: 01-04-2023 21:57:49

Number of reads: 4229289

Percentage reads mapped: 99.34

Strain: lineage4;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 0.95
lineage4 Euro-American LAM;T;S;X;H None 0.06
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 0.97 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 6264 p.Asp342Gly missense_variant 0.99
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9017 c.1716C>G synonymous_variant 0.95
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 0.96
rpoC 762434 c.-936T>G upstream_gene_variant 0.89
rpoC 763031 c.-339T>C upstream_gene_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.93
mmpR5 778298 c.-692C>T upstream_gene_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406968 c.372delT frameshift_variant 0.95
embR 1417353 c.-6C>G upstream_gene_variant 0.57
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472278 n.433C>T non_coding_transcript_exon_variant 1.0
rrl 1475175 n.1518G>T non_coding_transcript_exon_variant 0.17
rrl 1475445 n.1789delG non_coding_transcript_exon_variant 0.17
rrl 1475615 n.1958C>A non_coding_transcript_exon_variant 1.0
rrl 1475916 n.2259C>A non_coding_transcript_exon_variant 0.71
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.96
PPE35 2167926 p.Leu896Ser missense_variant 0.94
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 0.94
ahpC 2726105 c.-88G>A upstream_gene_variant 0.97
ribD 2986852 p.Gly5Asp missense_variant 0.97
thyA 3074445 c.27C>T synonymous_variant 0.96
ald 3086788 c.-32T>C upstream_gene_variant 0.95
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612068 p.Gly350Glu missense_variant 0.94
rpoA 3878641 c.-134C>G upstream_gene_variant 0.31
embC 4240355 p.Ala165Thr missense_variant 0.97
embC 4242075 p.Arg738Gln missense_variant 0.95
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338471 p.Arg17Ser missense_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.94
embR 1414586 c.-7_*1594del transcript_ablation 1.0