TB-Profiler result

Run: ERR2510820
Summary

Run ID: ERR2510820

Sample name:

Date: 31-03-2023 18:57:29

Number of reads: 1574714

Percentage reads mapped: 78.89

Strain: lineage4.8

Drug-resistance: Other

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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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.15 streptomycin
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 7523 c.222C>A synonymous_variant 0.12
rpoC 766085 p.Pro906Ala missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778108 p.Ser125Ala missense_variant 1.0
mmpR5 778166 c.-824G>T upstream_gene_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303595 p.Leu222Pro missense_variant 1.0
fbiC 1303743 c.813C>A synonymous_variant 1.0
atpE 1460992 c.-53A>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.22
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.13
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.12
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.19
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.11
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.18
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.14
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.18
rrs 1472274 n.429A>G non_coding_transcript_exon_variant 0.14
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.13
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.13
rrs 1472390 n.545T>A non_coding_transcript_exon_variant 0.13
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.13
rrs 1472522 n.677T>G non_coding_transcript_exon_variant 0.11
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.17
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.14
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.22
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.25
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.31
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.35
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.23
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.28
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.2
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.2
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.13
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.16
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.16
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 0.11
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.21
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.16
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.14
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.13
rrs 1473034 n.1189A>G non_coding_transcript_exon_variant 0.11
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.16
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.11
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.17
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.16
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.17
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.12
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.17
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.14
rrl 1473436 n.-222T>A upstream_gene_variant 0.17
rrl 1473855 n.198A>G non_coding_transcript_exon_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.12
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.12
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.13
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.14
rrl 1474528 n.871T>A non_coding_transcript_exon_variant 0.13
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.19
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.12
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.11
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.11
rrl 1474558 n.901G>C non_coding_transcript_exon_variant 0.12
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.2
rrl 1474783 n.1126G>T non_coding_transcript_exon_variant 0.17
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.15
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.15
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.12
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.12
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.12
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.12
rrl 1475772 n.2115A>C non_coding_transcript_exon_variant 0.12
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.11
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.11
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.12
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.14
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.15
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.15
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.15
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.16
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.12
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.18
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.13
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.15
fabG1 1673690 p.Val84Glu missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168863 c.1750C>T synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726491 p.His100Arg missense_variant 1.0
folC 2747356 p.Met81Ile missense_variant 0.14
folC 2747362 c.237G>T synonymous_variant 0.14
Rv2752c 3066038 p.His52Asn missense_variant 0.13
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3840764 c.657G>C synonymous_variant 1.0
rpoA 3878622 c.-115C>A upstream_gene_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267844 c.993C>T synonymous_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407556 p.Ala216Gly missense_variant 0.1
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0