TB-Profiler result

Run: SRR13837650
Summary

Run ID: SRR13837650

Sample name:

Date: 03-04-2023 09:15:09

Number of reads: 295526

Percentage reads mapped: 95.54

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 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
gyrA 9490 p.Gly730Asp missense_variant 0.9
fgd1 491231 p.Phe150Tyr missense_variant 1.0
mshA 575752 c.405G>A synonymous_variant 0.25
mshA 575767 c.420G>A synonymous_variant 0.22
mshA 575771 p.Val142Ser missense_variant 0.25
mshA 575779 c.432A>G synonymous_variant 0.22
mshA 575821 c.474G>C synonymous_variant 0.22
rpoC 762395 c.-975G>C upstream_gene_variant 0.22
rpoC 766128 p.Ala920Gly missense_variant 1.0
rpsL 781503 c.-57T>C upstream_gene_variant 1.0
fbiC 1303099 c.170dupA frameshift_variant 1.0
fbiC 1303302 c.372A>G synonymous_variant 0.17
fbiC 1303854 c.924T>C synonymous_variant 0.13
fbiC 1303860 c.930A>C synonymous_variant 0.12
fbiC 1303884 c.954T>G synonymous_variant 0.12
fbiC 1303905 c.975G>C synonymous_variant 0.12
fbiC 1304043 c.1116delC frameshift_variant 1.0
Rv1258c 1406861 p.Ile160Met missense_variant 1.0
Rv1258c 1407463 c.-123G>C upstream_gene_variant 1.0
rrs 1472303 n.458G>A non_coding_transcript_exon_variant 1.0
rrl 1474235 n.578G>T non_coding_transcript_exon_variant 1.0
rrl 1475139 n.1482C>T non_coding_transcript_exon_variant 1.0
rrl 1475313 n.1656G>A non_coding_transcript_exon_variant 0.17
rrl 1476248 n.2591G>A non_coding_transcript_exon_variant 1.0
rrl 1476576 n.2919C>G non_coding_transcript_exon_variant 1.0
kasA 2518209 p.Thr32Arg missense_variant 1.0
folC 2746788 p.Ala271Pro missense_variant 1.0
thyX 3067214 p.Ser244Arg missense_variant 1.0
fbiD 3339396 c.279C>T synonymous_variant 1.0
alr 3840800 p.Ile207Met missense_variant 0.4
rpoA 3878048 p.Ala154Ser missense_variant 1.0
embB 4248368 p.Leu619Val missense_variant 1.0
ethA 4327082 p.Cys131Ser missense_variant 1.0
ethA 4327097 p.Leu126His missense_variant 1.0
gid 4407792 c.411G>C synonymous_variant 1.0