TB-Profiler result

Run: ERR228212

Summary

Run ID: ERR228212

Sample name:

Date: 31-03-2023 17:48:52

Number of reads: 4280138

Percentage reads mapped: 99.27

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 0.96
lineage3.1.3 East-African-Indian CAS RD750 0.91
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 0.93
rpoC 762434 c.-936T>G upstream_gene_variant 0.97
rpoC 763031 c.-339T>C upstream_gene_variant 0.92
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.94
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474233 n.576C>G non_coding_transcript_exon_variant 0.12
rrl 1476213 n.2556G>T non_coding_transcript_exon_variant 0.14
inhA 1674952 p.Pro251Ala missense_variant 0.23
rpsA 1834159 c.618G>A synonymous_variant 0.92
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.93
PPE35 2167926 p.Leu896Ser missense_variant 0.91
PPE35 2169902 c.711G>A synonymous_variant 0.94
Rv1979c 2222732 c.432delT frameshift_variant 0.91
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 0.97
ahpC 2726105 c.-88G>A upstream_gene_variant 0.93
thyA 3073806 c.666C>G synonymous_variant 0.23
ald 3086788 c.-32T>C upstream_gene_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840859 p.Val188Phe missense_variant 0.9
embC 4242075 p.Arg738Gln missense_variant 0.97
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249195 c.2682C>A synonymous_variant 0.95
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.98
gid 4408175 p.Ala10Pro missense_variant 0.88