TB-Profiler result

Run: SRR13837442
Summary

Run ID: SRR13837442

Sample name:

Date: 03-04-2023 09:10:28

Number of reads: 884349

Percentage reads mapped: 95.31

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
rpoB 761402 c.1596C>T synonymous_variant 1.0
rpoC 762473 c.-897C>A upstream_gene_variant 1.0
rpoC 767080 c.3711G>C synonymous_variant 0.1
rpoC 767098 c.3729T>C synonymous_variant 0.14
rpoC 767104 c.3735C>G synonymous_variant 0.15
rpoC 767107 c.3738C>T synonymous_variant 0.14
rpoC 767125 c.3756G>C synonymous_variant 0.13
rpoC 767158 c.3789T>C synonymous_variant 0.1
rpoC 767203 c.3834C>G synonymous_variant 0.1
rpoC 767206 c.3837C>G synonymous_variant 0.1
rpoC 767209 c.3840T>C synonymous_variant 0.1
rpoC 767221 c.3852C>G synonymous_variant 0.13
mmpS5 778694 p.Tyr71Ser missense_variant 1.0
mmpR5 779478 p.Glu163Asp missense_variant 1.0
rplC 800969 p.Tyr54Ser missense_variant 1.0
embR 1417498 c.-151G>T upstream_gene_variant 1.0
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.11
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.11
rrs 1473125 n.1280A>T non_coding_transcript_exon_variant 0.89
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.11
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.12
rrl 1475195 n.1538G>T non_coding_transcript_exon_variant 0.97
rpsA 1833832 c.291G>A synonymous_variant 0.1
rpsA 1833838 c.297G>C synonymous_variant 0.1
rpsA 1833841 c.300C>G synonymous_variant 0.12
rpsA 1833847 c.306C>G synonymous_variant 0.12
rpsA 1833856 c.315A>G synonymous_variant 0.12
rpsA 1833862 c.321G>T synonymous_variant 0.15
rpsA 1833874 c.333T>G synonymous_variant 0.15
rpsA 1833886 c.345C>G synonymous_variant 0.15
rpsA 1833894 p.Ala118Glu missense_variant 0.15
rpsA 1833928 c.387G>C synonymous_variant 0.16
rpsA 1833949 c.408T>C synonymous_variant 0.15
rpsA 1833961 c.420C>G synonymous_variant 0.16
katG 2155952 p.Val54Ile missense_variant 1.0
kasA 2518986 p.Met291Arg missense_variant 1.0
Rv2752c 3065218 p.Ser325Ile missense_variant 1.0
Rv3083 3448654 p.Pro51Ala missense_variant 1.0
whiB7 3568465 p.Asp72Val missense_variant 1.0
fbiA 3640597 p.Val19Leu missense_variant 1.0
alr 3840493 p.Leu310Val missense_variant 1.0
clpC1 4039979 c.726C>G synonymous_variant 0.1
clpC1 4040009 c.696C>G synonymous_variant 0.1
clpC1 4040015 c.690G>C synonymous_variant 0.11
clpC1 4040021 c.684A>T synonymous_variant 0.11
clpC1 4040024 c.681A>G synonymous_variant 0.11
clpC1 4040033 c.672G>C synonymous_variant 0.11
embC 4239802 c.-61T>A upstream_gene_variant 1.0
embC 4241184 p.Thr441Lys missense_variant 1.0
embA 4243518 p.Gly96Cys missense_variant 1.0
embA 4244162 c.931dupC frameshift_variant 1.0
embB 4247920 c.1407T>C synonymous_variant 1.0
ethA 4327042 p.Asp144Glu missense_variant 1.0
ethR 4327865 p.Gly106Ala missense_variant 1.0