TB-Profiler result

Run: ERR2229319
Summary

Run ID: ERR2229319

Sample name:

Date: 31-03-2023 17:01:28

Number of reads: 1317613

Percentage reads mapped: 98.86

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 7162 c.-140C>T upstream_gene_variant 0.12
gyrA 7168 c.-134C>G upstream_gene_variant 0.12
gyrB 7172 p.Asp645Asn missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.2
mshA 576111 p.Ala255Gly missense_variant 0.2
mshA 576428 p.Glu361Gln missense_variant 0.1
ccsA 620566 p.Asp226Asn missense_variant 0.12
rpoB 761606 c.1800C>A synonymous_variant 0.18
rpoC 764240 p.Arg291Cys missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777228 p.Arg418Pro missense_variant 0.25
mmpR5 779197 p.Asn70Asp missense_variant 0.14
mmpS5 779636 c.-731C>T upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781554 c.-6C>A upstream_gene_variant 0.13
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304080 p.Ala384Ser missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474025 n.368T>A non_coding_transcript_exon_variant 0.12
fabG1 1673346 c.-94C>G upstream_gene_variant 0.13
fabG1 1673349 c.-91G>C upstream_gene_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101824 p.Phe407Leu missense_variant 0.11
PPE35 2167967 c.2646A>C synonymous_variant 0.13
PPE35 2167973 c.2640A>G synonymous_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.13
PPE35 2169281 c.1332T>G synonymous_variant 0.14
PPE35 2169287 c.1326T>C synonymous_variant 0.11
PPE35 2169587 c.1026G>A synonymous_variant 0.12
PPE35 2169732 p.Asn294Ser missense_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.65
PPE35 2170053 p.Thr187Ser missense_variant 0.64
Rv1979c 2222509 p.Ser219* stop_gained 0.12
Rv1979c 2222513 p.Phe218Leu missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518809 p.Lys232Arg missense_variant 0.12
kasA 2518864 c.750G>C synonymous_variant 0.11
kasA 2519140 c.1026G>C synonymous_variant 0.11
folC 2747423 p.Ser59Trp missense_variant 0.12
Rv2752c 3064855 p.Lys446Arg missense_variant 0.12
thyX 3067340 c.606G>A synonymous_variant 0.14
fbiB 3642778 p.Pro415Gln missense_variant 0.18
rpoA 3878599 c.-92C>G upstream_gene_variant 1.0
ddn 3986754 c.-90T>A upstream_gene_variant 0.12
clpC1 4039829 p.Leu292Ile missense_variant 0.18
clpC1 4040066 c.639G>T synonymous_variant 0.18
clpC1 4040423 c.282A>G synonymous_variant 0.1
embC 4241663 p.Gly601Trp missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244184 p.Ser318Leu missense_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.22
embB 4246548 p.Pro12Gln missense_variant 0.56
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
embB 4246563 p.Leu17Trp missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0