TB-Profiler result

Run: SRR4035601
Summary

Run ID: SRR4035601

Sample name:

Date: 04-04-2023 07:12:26

Number of reads: 1074006

Percentage reads mapped: 99.69

Strain: lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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
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 6140 p.Val301Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7840 p.Gly180Asp missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575372 p.Gly9Cys missense_variant 0.11
mshA 575510 p.Ser55Pro missense_variant 0.13
rpoB 761235 c.1432_1433delTG frameshift_variant 0.11
rpoC 764526 p.Arg386Leu missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801050 p.Leu81Pro missense_variant 0.11
Rv1258c 1407215 c.126G>A synonymous_variant 0.15
Rv1258c 1407451 c.-111C>A upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102024 c.1018dupG frameshift_variant 0.11
ndh 2102484 c.558dupC frameshift_variant 0.17
katG 2154988 p.Pro375Leu missense_variant 0.11
PPE35 2169320 p.Leu431Phe missense_variant 0.48
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289964 c.-723C>A upstream_gene_variant 0.15
folC 2746136 c.1463G>T stop_lost&splice_region_variant 0.12
folC 2746366 c.1233G>A synonymous_variant 0.11
Rv2752c 3064848 c.1344C>T synonymous_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087597 p.Pro260Ser missense_variant 0.13
ald 3087604 p.Ala262Val missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
panD 4044419 c.-138T>A upstream_gene_variant 0.14
embC 4241059 p.Glu399Asp missense_variant 0.15
embC 4241364 p.Leu501Pro missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245024 p.His598Asn missense_variant 0.12
embB 4247915 p.Arg468Cys missense_variant 0.12
embB 4248502 c.1989C>T synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408310 c.-108G>T upstream_gene_variant 0.12