TB-Profiler result

Run: SRR13837666
Summary

Run ID: SRR13837666

Sample name:

Date: 03-04-2023 09:15:30

Number of reads: 296598

Percentage reads mapped: 97.92

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 8827 p.Asp509Gly missense_variant 1.0
mshA 575561 p.Met72Val missense_variant 0.14
mshA 575569 c.222A>G synonymous_variant 0.13
mshA 575571 p.Ser75Thr missense_variant 0.14
mshA 575575 c.228G>C synonymous_variant 0.13
mshA 575587 c.240C>A synonymous_variant 0.14
mshA 575590 c.243T>C synonymous_variant 0.14
mshA 575593 c.246G>C synonymous_variant 0.13
mshA 575623 c.276C>G synonymous_variant 0.12
mshA 575629 c.282A>C synonymous_variant 0.12
mshA 575635 c.288A>C synonymous_variant 0.12
mshA 575638 c.291T>C synonymous_variant 0.12
mshA 575641 c.294A>G synonymous_variant 0.12
mshA 575648 p.Val101Gln missense_variant 0.12
mshA 575659 c.312A>G synonymous_variant 0.18
mshA 575665 c.318G>C synonymous_variant 0.18
mshA 575689 c.342G>C synonymous_variant 0.12
mshA 575695 c.348C>G synonymous_variant 0.13
mshA 575704 c.357T>C synonymous_variant 0.13
mshA 575705 c.358T>C synonymous_variant 0.13
mshA 575713 c.366G>A synonymous_variant 0.13
mshA 575719 c.372C>T synonymous_variant 0.13
mshA 575734 c.387T>G synonymous_variant 0.15
mshA 575737 c.390T>C synonymous_variant 0.15
mshA 575746 c.399C>G synonymous_variant 0.14
mshA 575752 c.405G>A synonymous_variant 0.14
mshA 575767 c.420G>A synonymous_variant 0.15
mshA 575771 p.Val142Ser missense_variant 0.17
mshA 575779 c.432A>G synonymous_variant 0.17
rpoC 763723 c.354G>C synonymous_variant 0.25
rpoC 763732 c.363C>G synonymous_variant 0.25
mmpR5 779201 p.Ala71Val missense_variant 1.0
rplC 801012 c.204T>C synonymous_variant 0.33
fbiC 1305062 p.Gly711Glu missense_variant 1.0
rrs 1472361 n.516C>G non_coding_transcript_exon_variant 0.9
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.2
rrl 1473839 n.182G>T non_coding_transcript_exon_variant 0.14
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.18
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.14
rrl 1473937 n.280C>T non_coding_transcript_exon_variant 0.14
rrl 1473944 n.287G>A non_coding_transcript_exon_variant 0.14
rrl 1473945 n.288T>C non_coding_transcript_exon_variant 0.14
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.12
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.13
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.14
rrl 1474051 n.394T>C non_coding_transcript_exon_variant 0.15
rrl 1475333 n.1676T>C non_coding_transcript_exon_variant 0.14
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.12
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.18
rrl 1475638 n.1981C>T non_coding_transcript_exon_variant 0.18
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.18
rrl 1475981 n.2324G>A non_coding_transcript_exon_variant 1.0
rpsA 1834620 p.Leu360Ser missense_variant 1.0
tlyA 1918366 p.Ala143Pro missense_variant 1.0
ndh 2101701 c.1341delG frameshift_variant 1.0
PPE35 2170109 c.504C>T synonymous_variant 1.0
kasA 2518676 p.Gly188Cys missense_variant 1.0
eis 2714749 p.Val195Ala missense_variant 1.0
eis 2715045 c.288G>A synonymous_variant 1.0
Rv2752c 3067080 c.-889G>C upstream_gene_variant 1.0
thyA 3074181 c.291A>G synonymous_variant 0.15
clpC1 4039055 p.Ile550Met missense_variant 1.0
embC 4242797 p.Asp979His missense_variant 1.0
embB 4247936 p.Thr475Ala missense_variant 1.0