TB-Profiler result

Run: ERR2229283
Summary

Run ID: ERR2229283

Sample name:

Date: 31-03-2023 16:56:19

Number of reads: 1307848

Percentage reads mapped: 99.27

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
mshA 575715 p.Tyr123Phe missense_variant 0.11
mshA 576111 p.Ala255Gly missense_variant 0.11
mshA 576303 p.Leu319Arg missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775719 p.Val921Ala missense_variant 0.11
mmpL5 776061 p.Thr807Ile missense_variant 0.11
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 0.98
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102074 p.Met323Lys missense_variant 0.16
ndh 2102837 p.Ala69Gly missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.24
PPE35 2170053 p.Thr187Ser missense_variant 0.24
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064888 p.Lys435Arg missense_variant 0.11
Rv2752c 3065421 c.771G>T synonymous_variant 0.15
Rv2752c 3065551 p.Ser214Leu missense_variant 0.14
thyA 3074454 c.18C>T synonymous_variant 0.11
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
Rv3236c 3612005 c.1111delC frameshift_variant 0.11
embC 4242617 p.Asp919Asn missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.23
embB 4246548 p.Pro12Gln missense_variant 0.29
embB 4246555 c.42G>C synonymous_variant 0.21
embB 4246556 p.Ala15Pro missense_variant 0.23
embB 4246563 p.Leu17Trp missense_variant 0.18
embB 4246567 c.54G>T synonymous_variant 0.18
embB 4249744 c.3231G>A synonymous_variant 0.12
embB 4249751 c.3238T>C synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0