TB-Profiler result

Run: ERR117643
Summary

Run ID: ERR117643

Sample name:

Date: 31-03-2023 12:15:07

Number of reads: 4348502

Percentage reads mapped: 99.36

Strain: lineage3.1.3

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 0.98
lineage3.1.3 East-African-Indian CAS RD750 0.97
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 0.96
rpoC 763031 c.-339T>C upstream_gene_variant 0.96
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.95
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406613 p.Glu243Ala missense_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472503 n.658G>T non_coding_transcript_exon_variant 0.25
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.4
rpsA 1834159 c.618G>A synonymous_variant 0.97
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.95
PPE35 2167926 p.Leu896Ser missense_variant 0.94
Rv1979c 2222732 c.432delT frameshift_variant 0.93
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 0.98
ahpC 2726105 c.-88G>A upstream_gene_variant 0.96
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 0.98
embC 4242425 p.Arg855Gly missense_variant 0.28
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248903 p.Thr797Met missense_variant 0.99
embB 4249195 c.2682C>A synonymous_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.96
gid 4408175 p.Ala10Pro missense_variant 0.97