TB-Profiler result

Run: ERR2229098
Summary

Run ID: ERR2229098

Sample name:

Date: 31-03-2023 16:38:32

Number of reads: 486944

Percentage reads mapped: 99.4

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 7545 p.Gly82Ser missense_variant 0.12
gyrA 8661 p.Asp454Tyr missense_variant 0.17
fgd1 491736 c.954C>A synonymous_variant 0.2
mshA 575322 c.-26C>T upstream_gene_variant 0.33
rpoB 761464 p.Val553Gly missense_variant 0.25
rpoC 762584 c.-786G>A upstream_gene_variant 0.29
rpoC 764458 c.1089G>A synonymous_variant 0.22
rpoC 765373 c.2004G>T synonymous_variant 0.22
rpoC 765383 p.Met672Leu missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776019 p.Leu821Gln missense_variant 0.17
mmpL5 776036 c.2445G>T synonymous_variant 0.17
mmpL5 777358 p.Arg375Trp missense_variant 0.29
mmpL5 777837 p.Ile215Thr missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781718 c.159C>T synonymous_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1407407 c.-67G>T upstream_gene_variant 0.13
embR 1416721 c.627A>T synonymous_variant 0.14
embR 1417274 p.Gly25Asp missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476118 n.2461G>A non_coding_transcript_exon_variant 0.12
rrl 1476704 n.3053delC non_coding_transcript_exon_variant 0.13
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673349 c.-91G>C upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
inhA 1674887 p.Gly229Asp missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918142 p.His68Leu missense_variant 0.17
tlyA 1918325 p.Val129Glu missense_variant 0.15
katG 2155233 c.879G>T synonymous_variant 0.18
PPE35 2167745 p.Thr956Arg missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169095 p.Leu506Phe missense_variant 0.4
PPE35 2169269 c.1344A>G synonymous_variant 0.17
PPE35 2169272 c.1341C>G synonymous_variant 0.18
PPE35 2169278 c.1335T>C synonymous_variant 0.2
PPE35 2169281 c.1332T>G synonymous_variant 0.2
PPE35 2169581 c.1032C>G synonymous_variant 0.13
PPE35 2169587 c.1026G>A synonymous_variant 0.12
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.36
PPE35 2170053 p.Thr187Ser missense_variant 0.36
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289034 p.Pro70Ser missense_variant 0.18
pncA 2290026 c.-785C>A upstream_gene_variant 0.2
eis 2714337 c.996G>A synonymous_variant 0.15
eis 2714433 c.900C>T synonymous_variant 0.14
eis 2714773 p.Pro187Leu missense_variant 0.33
folC 2746290 p.Arg437Ser missense_variant 0.33
folC 2746324 c.1275C>T synonymous_variant 0.22
pepQ 2859858 c.561G>T synonymous_variant 0.4
pepQ 2860376 p.Ala15Thr missense_variant 0.15
Rv2752c 3066385 c.-194T>C upstream_gene_variant 0.14
thyA 3074619 c.-148C>A upstream_gene_variant 0.15
fprA 3474711 c.705C>T synonymous_variant 0.17
Rv3236c 3612789 p.Leu110Ile missense_variant 0.25
fbiA 3641444 p.Val301Ala missense_variant 0.22
fbiB 3642582 p.Pro350Ala missense_variant 0.15
rpoA 3877492 p.Gln339Leu missense_variant 0.12
clpC1 4038685 p.Ser674Thr missense_variant 0.11
clpC1 4038814 p.His631Asn missense_variant 0.14
clpC1 4040691 p.Phe5Tyr missense_variant 0.18
embA 4242520 c.-713G>A upstream_gene_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246366 p.Tyr1045Cys missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 1.0
embB 4246556 p.Ala15Pro missense_variant 1.0
embB 4248988 c.2475C>A synonymous_variant 0.13
embB 4249341 p.Ala943Val missense_variant 0.12
aftB 4268776 c.60delG frameshift_variant 0.18
ubiA 4269409 p.Leu142Pro missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0