TB-Profiler result

Run: ERR2229704
Summary

Run ID: ERR2229704

Sample name:

Date: 31-03-2023 17:27:25

Number of reads: 739782

Percentage reads mapped: 99.34

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
gyrA 7726 p.Leu142Pro missense_variant 0.13
mshA 575949 c.603delC frameshift_variant 0.12
rpoB 760088 c.282C>T synonymous_variant 0.12
rpoC 763515 p.Glu49Val missense_variant 0.13
rpoC 765062 p.Ile565Phe missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777245 c.1236G>A synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305389 p.Ala820Asp missense_variant 0.12
Rv1258c 1407243 p.Leu33Gln missense_variant 0.17
embR 1416453 p.Arg299Cys missense_variant 0.22
atpE 1460890 c.-155G>A upstream_gene_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475965 n.2308A>T non_coding_transcript_exon_variant 0.5
fabG1 1673346 c.-94C>G upstream_gene_variant 0.1
fabG1 1673349 c.-91G>C upstream_gene_variant 0.1
fabG1 1673357 c.-83G>A upstream_gene_variant 0.19
fabG1 1673359 c.-81T>C upstream_gene_variant 0.19
fabG1 1673361 c.-79C>G upstream_gene_variant 0.19
fabG1 1673380 c.-60C>G upstream_gene_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102361 p.Leu228Val missense_variant 0.13
ndh 2102530 c.513G>A synonymous_variant 0.17
ndh 2103034 c.9C>T synonymous_variant 0.33
PPE35 2167814 c.2799C>T synonymous_variant 0.25
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169013 p.Val534Leu missense_variant 0.3
PPE35 2169178 c.1434delC frameshift_variant 0.33
PPE35 2170048 p.Leu189Val missense_variant 0.59
PPE35 2170053 p.Thr187Ser missense_variant 0.59
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518494 p.Asp127Val missense_variant 0.12
kasA 2518831 p.Phe239Leu missense_variant 0.13
ribD 2987358 p.Asp174Tyr missense_variant 0.12
thyX 3067340 c.606G>A synonymous_variant 0.15
fprA 3474039 c.36delG frameshift_variant 0.22
fprA 3475216 p.Asp404His missense_variant 0.17
fbiA 3640491 c.-52T>A upstream_gene_variant 0.14
clpC1 4038699 p.Gly669Ala missense_variant 0.25
clpC1 4039107 p.Arg533Gln missense_variant 0.12
clpC1 4040284 p.Leu141Met missense_variant 0.17
clpC1 4040447 c.257delA frameshift_variant 0.14
embC 4241633 p.Gly591Trp missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244324 c.1092T>C synonymous_variant 0.22
embA 4244706 p.Thr492Ala missense_variant 0.17
embB 4246544 p.Thr11Pro missense_variant 0.3
embB 4246548 p.Pro12Gln missense_variant 0.22
embB 4246555 c.42G>C synonymous_variant 0.29
embB 4246556 p.Ala15Pro missense_variant 0.29
embB 4246563 p.Leu17Trp missense_variant 0.18
embB 4246567 c.54G>T synonymous_variant 0.18
embB 4246747 p.Asp78Glu missense_variant 0.13
ethR 4327742 p.Phe65Ser missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0