TB-Profiler result

Run: SRR13837432
Summary

Run ID: SRR13837432

Sample name:

Date: 03-04-2023 09:10:10

Number of reads: 884215

Percentage reads mapped: 95.3

Strain: lineage4.9

Drug-resistance: Other

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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
pncA 2288784 p.Thr153Asn missense_variant 1.0 pyrazinamide
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 9494 p.Tyr731* stop_gained 1.0
fgd1 491771 p.Pro330Leu missense_variant 1.0
rpoB 762948 p.Gln1048Glu missense_variant 1.0
rpoC 767026 c.3657G>C synonymous_variant 0.97
fbiC 1303155 c.225G>C synonymous_variant 1.0
fbiC 1304225 p.Gly432Asp missense_variant 1.0
fbiC 1305046 p.Ser706Pro missense_variant 1.0
Rv1258c 1406433 c.907delA frameshift_variant 1.0
embR 1416546 p.Thr268Ser missense_variant 1.0
rrs 1472031 n.186G>C non_coding_transcript_exon_variant 0.1
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.13
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.13
rrl 1474652 n.995T>G non_coding_transcript_exon_variant 0.96
rrl 1474717 n.1060A>G non_coding_transcript_exon_variant 0.1
rrl 1474743 n.1086T>G non_coding_transcript_exon_variant 0.17
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.13
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.12
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.11
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.12
rpsA 1833685 c.144G>C synonymous_variant 0.11
rpsA 1834279 c.738C>T synonymous_variant 0.14
rpsA 1834294 c.753G>T synonymous_variant 0.14
rpsA 1834297 c.756C>T synonymous_variant 0.14
rpsA 1834303 c.762T>G synonymous_variant 0.13
rpsA 1834306 c.765T>C synonymous_variant 0.13
rpsA 1834327 c.786G>T synonymous_variant 0.15
rpsA 1834357 c.816T>C synonymous_variant 0.12
rpsA 1834366 c.825A>G synonymous_variant 0.11
rpsA 1834375 c.834G>C synonymous_variant 0.1
ndh 2102315 p.Ile243Thr missense_variant 1.0
kasA 2518563 p.Ala150Gly missense_variant 1.0
kasA 2519015 p.Ser301Ala missense_variant 1.0
Rv3236c 3612913 p.Leu68Phe missense_variant 1.0
rpoA 3878259 c.249G>C synonymous_variant 0.1
ethA 4326245 p.Asp410Ala missense_variant 1.0
ethR 4327132 c.-417G>A upstream_gene_variant 1.0
ethA 4327893 c.-420C>A upstream_gene_variant 1.0
gid 4408070 p.Trp45Arg missense_variant 1.0