TB-Profiler result

Run: SRR4033482
Summary

Run ID: SRR4033482

Sample name:

Date: 04-04-2023 06:07:29

Number of reads: 958777

Percentage reads mapped: 99.66

Strain: lineage4.3.2.1

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
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
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 761309 p.Asn501Lys missense_variant 0.15
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778075 p.Ala136Thr missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303539 c.609G>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1475006 n.1351delC non_coding_transcript_exon_variant 0.22
rrl 1475547 n.1890A>T non_coding_transcript_exon_variant 0.18
inhA 1673676 c.-526G>A upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102880 c.163C>T synonymous_variant 0.1
PPE35 2168476 p.Pro713Thr missense_variant 0.12
PPE35 2169320 p.Leu431Phe missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714715 c.618C>A synonymous_variant 0.17
folC 2746617 p.Ala328Thr missense_variant 0.11
Rv2752c 3064592 p.Arg534Cys missense_variant 0.13
Rv2752c 3065064 c.1128G>A synonymous_variant 0.11
thyX 3067504 p.Ala148Thr missense_variant 0.14
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 3474851 p.Arg282His missense_variant 0.17
fprA 3475097 p.Pro364Leu missense_variant 0.14
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4239795 c.-68C>T upstream_gene_variant 0.12
embC 4242425 p.Arg855Gly missense_variant 0.38
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247570 p.Pro353Ser missense_variant 0.11
aftB 4267039 p.Tyr600His missense_variant 0.29
ethA 4326202 c.1272A>G synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408415 c.-213T>C upstream_gene_variant 0.13