TB-Profiler result

Run: SRR6981955
Summary

Run ID: SRR6981955

Sample name:

Date: 04-04-2023 18:22:57

Number of reads: 58489

Percentage reads mapped: 99.58

Strain: lineage4.9;lineage2.2.1

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 0.93
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.22
lineage4.9 Euro-American (H37Rv-like) T1 None 0.96
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.06
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7729 p.Arg143Met missense_variant 0.67
fgd1 490648 c.-135_-134insCG upstream_gene_variant 0.4
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576459 c.1117_1147delGCGGTGGGCGGGCTGCCCGTCGCGGTGCGCG frameshift_variant 0.67
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759719 c.-88C>A upstream_gene_variant 0.5
rpoB 760443 p.Arg213Ser missense_variant 1.0
rpoC 764575 c.1206T>C synonymous_variant 0.33
rpoC 765013 c.1644C>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406273 c.1068C>A synonymous_variant 0.33
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472773 n.928A>G non_coding_transcript_exon_variant 0.5
rrl 1473950 n.293G>T non_coding_transcript_exon_variant 1.0
inhA 1674883 p.Ile228Val missense_variant 1.0
inhA 1674974 p.Ile258Thr missense_variant 0.67
rpsA 1834177 c.636A>C synonymous_variant 1.0
ndh 2102194 p.Ser283Arg missense_variant 0.4
PPE35 2170048 p.Leu189Val missense_variant 1.0
PPE35 2170053 p.Thr187Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289075 p.Asp56Gly missense_variant 1.0
folC 2747068 p.Met177Ile missense_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841384 p.Asp13His missense_variant 0.29
panD 4044279 c.3G>T start_lost 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269074 p.Pro254Thr missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0