TB-Profiler result

Run: ERR4812474
Summary

Run ID: ERR4812474

Sample name:

Date: 01-04-2023 12:05:59

Number of reads: 4554978

Percentage reads mapped: 96.68

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491330 p.Lys183Thr missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.41
mshA 576111 p.Ala255Gly missense_variant 0.19
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777109 p.Asn458Asp missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461159 p.Val39Ile missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.11
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.11
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.17
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.16
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.16
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.16
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.15
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.15
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.15
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.14
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.14
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.15
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.15
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.14
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.11
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.12
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.12
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.11
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.12
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.12
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.12
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.12
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.15
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.11
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.1
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.1
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.11
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.11
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.14
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.14
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.15
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.12
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.12
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.12
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.12
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.12
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.12
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.12
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.13
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.21
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.29
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.28
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.26
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.17
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.13
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168022 p.Leu864Arg missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3073956 c.516G>C synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038586 p.Pro707Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.14
embB 4247028 p.Leu172Arg missense_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407720 c.483C>G synonymous_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0