TB-Profiler result

Run: ERR4814638

Summary

Run ID: ERR4814638

Sample name:

Date: 01-04-2023 13:24:32

Number of reads: 1013189

Percentage reads mapped: 98.97

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7951 p.Ala217Val missense_variant 0.14
rpoC 765369 p.Thr667Met missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473044 n.1199C>A non_coding_transcript_exon_variant 0.29
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475462 n.1809delA non_coding_transcript_exon_variant 1.0
inhA 1674463 p.Leu88Phe missense_variant 0.11
inhA 1674911 p.Pro237Leu missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223128 p.Lys13Gln missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714984 p.Ala117Ser missense_variant 0.19
eis 2715033 p.Met100Ile missense_variant 0.15
folC 2747565 p.Gly12* stop_gained 0.22
pepQ 2859811 p.Pro203Gln missense_variant 0.2
ribD 2987090 c.252C>A synonymous_variant 0.12
Rv3236c 3612381 p.Leu246Met missense_variant 0.22
embC 4241685 p.Val608Gly missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244131 p.Thr300Met missense_variant 1.0
embA 4245279 p.Arg683Gly missense_variant 0.11
embB 4249564 p.Asp1017Glu missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338630 c.-109C>A upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0