TB-Profiler result

Run: SRR7131096
Summary

Run ID: SRR7131096

Sample name:

Date: 04-04-2023 18:44:59

Number of reads: 1573304

Percentage reads mapped: 99.99

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 0.25 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 0.13
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 1472137 n.292G>A non_coding_transcript_exon_variant 0.14
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.33
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.17
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.15
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.23
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.21
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.19
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.22
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.1
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.15
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.13
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.12
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.12
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.18
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.15
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.23
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.23
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.29
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.31
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.2
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.22
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.32
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.3
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.18
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.14
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.19
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.19
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.27
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.33
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 0.11
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.33
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.27
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.15
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.11
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.21
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.11
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 1475751 n.2094C>T non_coding_transcript_exon_variant 0.12
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.13
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.13
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.13
rrl 1475772 n.2115A>C non_coding_transcript_exon_variant 0.14
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.14
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.16
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.45
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.43
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.49
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.5
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.25
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.21
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.13
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.13
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.2
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.15
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.12
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.12
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.12
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.1
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.17
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.38
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.39
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.24
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.43
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.45
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.44
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.25
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.12
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.34
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.44
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.38
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.23
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.46
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.32
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
ahpC 2726565 p.Leu125Val missense_variant 0.14
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 3878474 p.Asp12Tyr missense_variant 0.12
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