TB-Profiler result

Run: ERR2229016
Summary

Run ID: ERR2229016

Sample name:

Date: 31-03-2023 16:30:26

Number of reads: 324672

Percentage reads mapped: 99.59

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 8271 p.Ala324Thr missense_variant 0.12
ccsA 620238 c.348G>A synonymous_variant 0.15
rpoC 765215 p.Ala616Thr missense_variant 0.22
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 1406568 p.Val258Glu missense_variant 0.2
embR 1417040 p.Leu103Arg missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 0.94
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474912 n.1256delT non_coding_transcript_exon_variant 0.12
rrl 1475459 n.1802C>A non_coding_transcript_exon_variant 0.21
rrl 1476610 n.2953C>T non_coding_transcript_exon_variant 0.22
inhA 1673601 c.-601G>T upstream_gene_variant 0.33
rpsA 1834432 c.891G>T synonymous_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155053 p.Tyr353* stop_gained 0.33
katG 2155092 c.1020G>A synonymous_variant 0.33
PPE35 2167745 p.Thr956Arg missense_variant 0.27
PPE35 2167833 p.Leu927Arg missense_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168981 c.1632A>T synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288702 c.540C>T synonymous_variant 0.18
pncA 2289882 c.-641C>A upstream_gene_variant 0.17
pncA 2290191 c.-950C>A upstream_gene_variant 0.33
pncA 2290213 c.-972G>T upstream_gene_variant 0.4
kasA 2518435 c.321G>A synonymous_variant 0.29
Rv2752c 3066160 p.Leu11Pro missense_variant 0.25
ald 3087865 p.Ala349Val missense_variant 0.17
fbiB 3642658 p.Val375Gly missense_variant 0.25
alr 3841546 c.-126C>A upstream_gene_variant 0.14
clpC1 4038509 c.2196C>T synonymous_variant 0.29
clpC1 4040144 c.561G>C synonymous_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4326984 p.Pro164Thr missense_variant 0.15
ethA 4327336 p.Asp46Glu missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0