TB-Profiler result

Run: ERR2229334
Summary

Run ID: ERR2229334

Sample name:

Date: 31-03-2023 17:03:14

Number of reads: 1514569

Percentage reads mapped: 98.11

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
fgd1 491149 p.Pro123Thr missense_variant 0.15
mshA 576108 p.Ala254Gly missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777293 c.1188T>C synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475634 n.1977G>T non_coding_transcript_exon_variant 0.12
rrl 1476255 n.2598A>G non_coding_transcript_exon_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.36
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.75
PPE35 2170053 p.Thr187Ser missense_variant 0.76
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.14
kasA 2518609 p.Met165Ile missense_variant 0.12
kasA 2518722 p.Glu203Val missense_variant 0.13
kasA 2518864 c.750G>C synonymous_variant 0.2
Rv2752c 3065305 p.Ala296Val missense_variant 0.14
fbiB 3642129 p.Ala199Thr missense_variant 0.12
fbiB 3642850 p.Val439Glu missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.23
rpoA 3878599 c.-92C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245460 p.Pro743Leu missense_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.21
embB 4246548 p.Pro12Gln missense_variant 0.58
embB 4246555 c.42G>C synonymous_variant 0.52
embB 4246556 p.Ala15Pro missense_variant 0.52
embB 4246584 p.Arg24Pro missense_variant 0.12
ubiA 4269898 c.-65C>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0