TB-Profiler result

Run: ERR11044954

Summary

Run ID: ERR11044954

Sample name:

Date: 31-03-2023 12:03:31

Number of reads: 776297

Percentage reads mapped: 99.75

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 9087 p.Val596Met missense_variant 0.11
mshA 576108 p.Ala254Gly missense_variant 0.27
mshA 576113 p.Arg256Gly missense_variant 0.27
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779258 p.Arg90His missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1416372 p.Ser326Gly missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154129 c.1983G>A synonymous_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288866 p.Asp126Asn missense_variant 0.9
folC 2747593 p.Asn2Lys missense_variant 0.17
pepQ 2860159 p.Ala87Gly missense_variant 0.25
ribD 2986963 p.Arg42Gln missense_variant 0.11
whiB7 3568431 c.249C>G synonymous_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.5
clpC1 4040488 p.Ala73Thr missense_variant 0.12
embC 4240411 c.549G>C synonymous_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0