TB-Profiler result

Run: ERR2652961
Summary

Run ID: ERR2652961

Sample name:

Date: 31-03-2023 22:25:16

Number of reads: 804442

Percentage reads mapped: 99.72

Strain: lineage4.4.1.2

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.2 Euro-American T1 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
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 7215 p.Arg659Gln missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9746 c.2445C>T synonymous_variant 1.0
mshA 575385 p.Ile13Thr missense_variant 0.11
mshA 576543 p.Ala399Val missense_variant 0.11
rpoB 760922 c.1116G>A synonymous_variant 0.15
rpoC 767201 c.3835delC frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779565 c.-660G>C upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417302 p.Leu16Phe missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167770 p.Ser948Ile missense_variant 1.0
PPE35 2168953 p.Asn554Tyr missense_variant 0.15
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859570 c.849C>T synonymous_variant 0.12
pepQ 2860213 p.Pro69Leu missense_variant 1.0
thyA 3073727 c.744delG frameshift_variant 0.15
thyA 3074559 c.-88C>T upstream_gene_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339557 p.Gly147Asp missense_variant 0.11
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474415 p.His137Tyr missense_variant 1.0
fbiA 3640362 c.-181C>T upstream_gene_variant 0.11
clpC1 4040619 p.Gly29Asp missense_variant 0.13
embC 4240681 c.819G>A synonymous_variant 0.11
embC 4242603 p.Ser914Leu missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246283 c.-231G>A upstream_gene_variant 0.11
embB 4246720 c.207C>A synonymous_variant 0.12
embB 4249012 c.2499G>A synonymous_variant 1.0
aftB 4267575 p.Ala421Val missense_variant 0.12
aftB 4267726 c.1111C>T synonymous_variant 0.11
aftB 4268051 c.786G>A synonymous_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0