TB-Profiler result

Run: ERR2229331
Summary

Run ID: ERR2229331

Sample name:

Date: 31-03-2023 17:02:10

Number of reads: 1398072

Percentage reads mapped: 98.09

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 6637 c.-665T>C upstream_gene_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.25
mshA 576397 p.Ser350Arg missense_variant 0.14
rpoB 760843 p.Gln346Arg missense_variant 0.11
rpoC 765311 p.Ala648Ser missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778030 p.Val151Met missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1417005 p.Phe115Ile missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475040 n.1383G>T non_coding_transcript_exon_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.32
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155199 p.Gly305Arg missense_variant 0.17
PPE35 2167745 p.Thr956Arg missense_variant 0.16
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.54
PPE35 2170053 p.Thr187Ser missense_variant 0.54
PPE35 2170247 p.Ile122Met missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290194 c.-953G>T upstream_gene_variant 0.17
kasA 2518879 c.765A>G synonymous_variant 0.12
kasA 2519140 c.1026G>C synonymous_variant 0.2
kasA 2519143 c.1029G>C synonymous_variant 0.19
folC 2746567 p.Ser344Arg missense_variant 0.2
pepQ 2860552 c.-134C>G upstream_gene_variant 0.12
ribD 2987020 p.Ala61Gly missense_variant 0.13
Rv2752c 3065003 p.His397Asn missense_variant 0.12
thyX 3067524 p.Ala141Asp missense_variant 0.22
thyX 3067530 p.Ala139Val missense_variant 0.22
thyX 3067534 p.Ala138Thr missense_variant 0.22
thyX 3067539 p.Ala136Val missense_variant 0.25
fprA 3474050 p.Ala15Val missense_variant 0.22
fprA 3474360 p.Asp118Glu missense_variant 0.12
fbiB 3642630 p.Thr366Ser missense_variant 0.17
fbiB 3642637 p.Ala368Gly missense_variant 0.17
rpoA 3878540 c.-33A>G upstream_gene_variant 0.12
clpC1 4039003 p.Asn568Asp missense_variant 0.19
clpC1 4039018 p.Ser563Ala missense_variant 0.11
clpC1 4039022 c.1683A>G synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243378 p.Ser49Ile missense_variant 0.15
embA 4244544 p.Ala438Ser missense_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.41
embB 4246555 c.42G>C synonymous_variant 0.38
embB 4246556 p.Ala15Pro missense_variant 0.38
embB 4246563 p.Leu17Trp missense_variant 0.18
embB 4246567 c.54G>T synonymous_variant 0.14
embB 4247028 p.Leu172Arg missense_variant 0.2
aftB 4268910 c.-74T>C upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407591 c.612C>T synonymous_variant 0.13
Rv3083 3448500 c.-3_*1408del transcript_ablation 1.0