TB-Profiler result

Run: DRR034483
Summary

Run ID: DRR034483

Sample name:

Date: 31-03-2023 07:00:11

Number of reads: 912297

Percentage reads mapped: 98.42

Strain: lineage4.4

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
lineage4.4 Euro-American S;T None 1.0
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
gid 4407760 p.Trp148* stop_gained 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
mshA 576633 p.Ser429Leu missense_variant 0.15
mshA 576644 p.Thr433Ser missense_variant 0.12
mshA 576697 c.1350C>A synonymous_variant 0.12
ccsA 620610 p.Phe240Leu missense_variant 0.22
ccsA 620755 p.Asp289Asn missense_variant 0.22
ccsA 620842 p.His318Asp missense_variant 0.2
rpoB 761152 p.Leu449Gln missense_variant 0.14
rpoB 762418 p.Arg871Leu missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406596 p.Lys249Glu missense_variant 0.17
Rv1258c 1406945 c.396C>G synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1674145 p.Val236Ile missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746728 p.Leu291Met missense_variant 0.15
pepQ 2859516 p.Gln301His missense_variant 0.11
pepQ 2859555 c.864G>A synonymous_variant 0.12
pepQ 2860043 p.Gly126Arg missense_variant 0.29
ribD 2987077 p.Val80Ala missense_variant 0.17
Rv2752c 3066099 p.Met31Ile missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448754 p.Tyr84Cys missense_variant 0.11
fprA 3473998 c.-9G>A upstream_gene_variant 1.0
fprA 3473998 c.-10_-9insA upstream_gene_variant 1.0
fbiB 3641722 p.Ala63Val missense_variant 0.15
fbiB 3642073 p.Arg180His missense_variant 0.22
clpC1 4038552 p.Val718Asp missense_variant 0.14
clpC1 4039267 p.Asp480Asn missense_variant 0.12
embC 4241022 c.1162_1163delGT frameshift_variant 0.2
embC 4241528 p.Arg556Ser missense_variant 0.14
embC 4242115 c.2253G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243044 p.Gln1061Leu missense_variant 0.22
embA 4243054 c.-179G>A upstream_gene_variant 0.25
embA 4244058 p.Tyr276His missense_variant 0.25
embA 4244992 p.Val587Ala missense_variant 0.25
embB 4246508 c.-6G>A upstream_gene_variant 1.0
aftB 4267254 p.His528Leu missense_variant 0.18
aftB 4267879 p.Val320Leu missense_variant 0.17
aftB 4268143 p.Tyr232His missense_variant 0.12
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
ubiA 4269082 p.Ser251Leu missense_variant 0.13
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0