TB-Profiler result

Run: ERR2179649
Summary

Run ID: ERR2179649

Sample name:

Date: 15-08-2022 12:00:10

Number of reads: 1896613

Percentage reads mapped: 97.58

Strain: lineage4.5;lineage2.2

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.5 Euro-American H;T RD122 0.95
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.05
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 0.11 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 7892 c.591G>A synonymous_variant 0.91
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 0.95
rpoC 767314 p.Tyr1315* stop_gained 0.24
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.16
mmpR5 779079 p.Arg30Ser missense_variant 0.95
mmpS5 779615 c.-710C>G upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406101 p.Pro414Ser missense_variant 0.96
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476077 n.2420T>G non_coding_transcript_exon_variant 0.91
fabG1 1673359 c.-81T>G upstream_gene_variant 0.93
inhA 1674952 p.Pro251Ala missense_variant 0.4
katG 2154724 p.Arg463Leu missense_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 0.14
PPE35 2170568 p.Ile15Met missense_variant 0.77
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877482 c.1026C>T synonymous_variant 0.95
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 0.84
clpC1 4038857 c.1848C>A synonymous_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247828 p.Ala439Thr missense_variant 0.95
aftB 4267647 p.Asp397Gly missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0