TB-Profiler result

Run: ERR4820213
Summary

Run ID: ERR4820213

Sample name:

Date: 01-04-2023 16:33:08

Number of reads: 1132755

Percentage reads mapped: 99.56

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
gyrB 5183 c.-57G>A upstream_gene_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7375 p.Gln25Pro missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777077 c.1404C>T synonymous_variant 0.12
mmpL5 778786 c.-306G>A upstream_gene_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473223 n.1378G>T non_coding_transcript_exon_variant 0.5
rrl 1473633 n.-25C>T upstream_gene_variant 0.33
rrl 1474534 n.877G>A non_coding_transcript_exon_variant 0.67
rpsA 1833761 p.Val74Ile missense_variant 0.11
rpsA 1834566 p.Asp342Gly missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102321 p.Val241Ala missense_variant 0.12
ndh 2102351 p.Arg231Pro missense_variant 0.17
PPE35 2167661 p.Ser984Arg missense_variant 0.14
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168410 p.Thr735Ala missense_variant 0.14
PPE35 2168603 c.2010C>A synonymous_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064565 p.Glu543* stop_gained 0.12
thyX 3067435 p.Ala171Thr missense_variant 0.11
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568512 c.168G>A synonymous_variant 0.12
Rv3236c 3612715 c.402G>A synonymous_variant 0.11
Rv3236c 3612839 p.Ala93Glu missense_variant 0.11
Rv3236c 3612878 p.Thr80Ile missense_variant 0.11
embC 4242068 p.Val736Ile missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249704 c.3194_3195delGC frameshift_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0