TB-Profiler result

Run: ERR2229773
Summary

Run ID: ERR2229773

Sample name:

Date: 31-03-2023 17:35:01

Number of reads: 379980

Percentage reads mapped: 99.64

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
ccsA 620748 c.858T>G synonymous_variant 0.35
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1407084 p.Val86Gly missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473117 n.1272A>G non_coding_transcript_exon_variant 0.1
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475075 n.1418A>C non_coding_transcript_exon_variant 0.21
rrl 1476410 n.2753C>A non_coding_transcript_exon_variant 0.11
fabG1 1673863 p.Ser142Pro missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918066 p.Ala43Pro missense_variant 0.5
ndh 2102540 p.Ala168Gly missense_variant 0.33
ndh 2102932 p.Asp37Glu missense_variant 0.12
katG 2155540 p.Trp191Leu missense_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 1.0
Rv1979c 2222186 p.Trp327Gly missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289973 c.-732T>C upstream_gene_variant 0.22
ahpC 2726338 p.Val49Gly missense_variant 0.22
Rv2752c 3064631 p.Ala521Thr missense_variant 0.13
thyA 3074393 p.Arg27Ser missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
embC 4240249 p.Asp129Glu missense_variant 0.14
embC 4240275 p.Pro138Gln missense_variant 0.12
embC 4241473 c.1611G>T synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268557 p.Gly94* stop_gained 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0