TB-Profiler result

Run: ERR2653019
Summary

Run ID: ERR2653019

Sample name:

Date: 31-03-2023 22:27:25

Number of reads: 2275559

Percentage reads mapped: 99.29

Strain: lineage4.1.1

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
lineage4.1 Euro-American T;X;H None 0.99
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.99
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 781821 p.Lys88Gln missense_variant 1.0 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 9304 p.Gly668Asp missense_variant 1.0
rpoB 759904 p.Val33Ala missense_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775593 p.Leu963Ser missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303155 c.225G>A synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475122 n.1465C>T non_coding_transcript_exon_variant 1.0
inhA 1674451 p.Ala84Pro missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714244 c.1089G>A synonymous_variant 0.12
eis 2714955 c.378C>T synonymous_variant 0.14
ahpC 2726210 c.18T>C synonymous_variant 1.0
pepQ 2860039 p.Thr127Asn missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612308 p.Phe270Ser missense_variant 0.11
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3641602 p.Phe23Cys missense_variant 0.11
fbiB 3642318 p.Ser262Pro missense_variant 0.1
rpoA 3877553 p.Glu319Lys missense_variant 0.97
rpoA 3878601 c.-95delG upstream_gene_variant 0.18
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243484 c.252C>G synonymous_variant 1.0
embB 4246838 p.Ala109Ser missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
ethA 4328106 c.-633T>C upstream_gene_variant 0.12
whiB6 4338498 p.Glu8Asp missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0