TB-Profiler result

Run: ERR2229349
Summary

Run ID: ERR2229349

Sample name:

Date: 31-03-2023 17:03:54

Number of reads: 1795716

Percentage reads mapped: 98.52

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 576108 p.Ala254Gly missense_variant 0.25
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.22
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.12
rrs 1472368 n.523A>G non_coding_transcript_exon_variant 0.17
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.12
rrs 1472582 n.737G>T non_coding_transcript_exon_variant 0.12
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.12
rrs 1472585 n.740A>C non_coding_transcript_exon_variant 0.12
rrs 1472623 n.778A>C non_coding_transcript_exon_variant 0.18
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.25
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474202 n.545T>G non_coding_transcript_exon_variant 0.15
rrl 1474218 n.561T>G non_coding_transcript_exon_variant 0.29
rrl 1474253 n.596A>T non_coding_transcript_exon_variant 0.16
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.12
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.15
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.15
fabG1 1673346 c.-94C>G upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.17
PPE35 2167967 c.2646A>C synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.56
PPE35 2170053 p.Thr187Ser missense_variant 0.55
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290202 c.-961C>T upstream_gene_variant 0.14
Rv2752c 3065899 p.Pro98His missense_variant 0.12
rpoA 3878599 c.-92C>G upstream_gene_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.18
clpC1 4039645 p.His354Asp missense_variant 0.12
embC 4241630 p.Phe590Leu missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244821 p.Gly530Val missense_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.29
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246563 p.Leu17Trp missense_variant 0.33
embB 4246567 c.54G>T synonymous_variant 0.43
embB 4247104 c.594delC frameshift_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0