TB-Profiler result

Run: ERR2228984
Summary

Run ID: ERR2228984

Sample name:

Date: 31-03-2023 16:29:17

Number of reads: 340803

Percentage reads mapped: 99.57

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 0.99
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 490915 p.Arg45Cys missense_variant 0.29
rpoC 767197 c.3828G>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777823 c.657delG frameshift_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302733 c.-198C>T upstream_gene_variant 0.4
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304646 c.1716T>A synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154035 p.Arg693Cys missense_variant 0.18
katG 2156218 c.-108delA upstream_gene_variant 0.22
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169361 p.Asn418Tyr missense_variant 0.14
PPE35 2169488 c.1125G>C synonymous_variant 0.15
PPE35 2169491 c.1122T>C synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289281 c.-40G>A upstream_gene_variant 0.14
eis 2714576 p.Trp253Arg missense_variant 0.14
ald 3086909 c.90C>T synonymous_variant 0.13
fprA 3474143 p.Trp46Tyr missense_variant 0.29
Rv3236c 3612702 p.Asp139Tyr missense_variant 0.17
Rv3236c 3612915 c.202T>C synonymous_variant 0.14
alr 3841546 c.-126C>A upstream_gene_variant 0.17
ddn 3986778 c.-66G>A upstream_gene_variant 0.18
clpC1 4039645 p.His354Asp missense_variant 0.22
embC 4240377 p.Val172Glu missense_variant 0.17
embC 4240801 c.939C>T synonymous_variant 0.17
embC 4240803 p.Tyr314Phe missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245303 p.Leu691Met missense_variant 0.15
aftB 4267210 p.Trp543Arg missense_variant 0.18
aftB 4268110 p.Lys243* stop_gained 0.2
ethA 4326575 p.Asp300Val missense_variant 0.25
whiB6 4338491 p.Thr11Ala missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0