TB-Profiler result

Run: ERR7801250
Summary

Run ID: ERR7801250

Sample name:

Date: 02-04-2023 06:00:22

Number of reads: 717580

Percentage reads mapped: 99.64

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 7441 p.Gly47Val missense_variant 0.17
gyrA 7498 p.Pro66Gln missense_variant 0.14
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8724 p.Gln475Lys missense_variant 0.14
gyrA 8803 p.Ala501Asp missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575691 p.Gly115Val missense_variant 0.15
mshA 576212 p.Lys289Gln missense_variant 0.11
mshA 576462 p.Ala372Glu missense_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775924 c.2557C>T synonymous_variant 0.13
mmpL5 776585 c.1896C>A synonymous_variant 0.12
mmpL5 776614 p.Leu623Ile missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304857 p.Thr643Ala missense_variant 0.11
atpE 1461105 p.Ala21Thr missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 1.0
inhA 1674390 c.189C>A synonymous_variant 0.2
rpsA 1834762 p.Phe407Leu missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102395 c.648C>G synonymous_variant 1.0
PPE35 2170384 p.Ala77Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289783 c.-542G>T upstream_gene_variant 0.16
kasA 2518297 c.183C>T synonymous_variant 0.13
folC 2746818 p.Ser261Pro missense_variant 0.15
pepQ 2860159 c.236_259delTCGGGCGCTACCTGGCCGGCCGGG disruptive_inframe_deletion 0.2
thyX 3067616 c.330C>A synonymous_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475059 p.Ser351Arg missense_variant 0.12
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
fbiB 3641637 p.Ala35Ser missense_variant 0.18
alr 3840719 c.702A>G synonymous_variant 1.0
rpoA 3877953 p.Gln185His missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038691 p.Asp672Tyr missense_variant 0.13
clpC1 4038841 p.Val622Leu missense_variant 0.5
panD 4043938 p.Ile115Thr missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267719 p.Gly373Val missense_variant 0.2
aftB 4268737 p.Val34Phe missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0