TB-Profiler result

Run: SRR14782170
Summary

Run ID: SRR14782170

Sample name:

Date: 03-04-2023 11:14:54

Number of reads: 3877218

Percentage reads mapped: 99.6

Strain: lineage4.8;lineage2.2.1

Drug-resistance: HR-TB

Download CSV Download TXT Download PDF Download JSON
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
lineage2 East-Asian Beijing RD105 0.12
lineage4 Euro-American LAM;T;S;X;H None 0.88
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.12
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.88
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.14
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
katG 2155168 p.Ser315Thr missense_variant 0.13 isoniazid
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 0.13
gyrA 9304 p.Gly668Asp missense_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.36
mshA 576482 p.Val379Leu missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 0.1
rpoC 766645 p.Glu1092Asp missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.17
mmpS5 779615 c.-710C>G upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.9
fabG1 1673249 c.-191C>A upstream_gene_variant 0.9
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918346 p.Ala136Val missense_variant 0.85
katG 2154724 p.Arg463Leu missense_variant 0.12
PPE35 2168149 p.Pro822Ser missense_variant 0.91
PPE35 2170065 p.Ala183Gly missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.11
fbiD 3339734 p.Ala206Gly missense_variant 0.42
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.14
fbiB 3642321 p.Val263Ile missense_variant 0.9
alr 3841535 c.-115G>A upstream_gene_variant 0.13
rpoA 3878637 c.-130G>C upstream_gene_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.15
embB 4246584 p.Arg24Pro missense_variant 0.16
whiB6 4338595 c.-75delG upstream_gene_variant 1.0