TB-Profiler result

Run: ERR4814773
Summary

Run ID: ERR4814773

Sample name:

Date: 01-04-2023 13:28:54

Number of reads: 918248

Percentage reads mapped: 99.37

Strain: lineage4.1.2.1

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
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 8762 c.1461G>A synonymous_variant 0.17
gyrA 8875 p.Tyr525Cys missense_variant 0.11
gyrA 9196 p.Val632Ala missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491203 p.Gln141Lys missense_variant 0.29
fgd1 491394 c.612C>G synonymous_variant 0.33
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576361 c.1014C>A synonymous_variant 0.15
ccsA 620364 c.474C>T synonymous_variant 0.15
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761647 p.Arg614His missense_variant 0.33
rpoC 763821 p.Leu151Arg missense_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766130 p.Tyr921His missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776285 c.2196C>A synonymous_variant 0.11
mmpL5 777488 c.993C>T synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304323 p.Asp465Asn missense_variant 0.12
Rv1258c 1406726 c.615C>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918076 p.Val46Ala missense_variant 0.2
ndh 2102457 p.Thr196Ala missense_variant 0.11
katG 2154556 p.Arg519His missense_variant 0.12
PPE35 2168280 p.Pro778Leu missense_variant 0.13
PPE35 2170156 p.Ala153Thr missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518484 p.Glu124Lys missense_variant 0.13
folC 2747193 p.Gln136Lys missense_variant 0.14
ribD 2986868 c.30T>C synonymous_variant 0.22
ribD 2987207 c.369C>T synonymous_variant 0.12
Rv2752c 3065002 p.His397Arg missense_variant 0.1
Rv2752c 3066006 c.186G>A synonymous_variant 0.12
thyX 3067821 p.Ala42Asp missense_variant 0.12
thyA 3074514 c.-43T>C upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339596 p.Pro160Gln missense_variant 0.18
Rv3083 3448430 c.-74C>T upstream_gene_variant 0.12
Rv3083 3449259 c.756A>G synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474712 p.Glu236Lys missense_variant 0.12
whiB7 3568494 c.186C>A synonymous_variant 0.11
Rv3236c 3612366 p.Leu251Val missense_variant 0.14
fbiB 3641268 c.-267C>T upstream_gene_variant 0.13
fbiB 3641640 p.Ala36Thr missense_variant 0.22
fbiB 3641643 p.Ala37Ser missense_variant 0.2
embC 4242005 p.Leu715Met missense_variant 0.11
embC 4242312 p.Gly817Val missense_variant 0.18
embA 4242554 c.-679T>C upstream_gene_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243324 p.Val31Ala missense_variant 0.1
embA 4244243 c.1011G>T synonymous_variant 0.5
embB 4247817 p.Val435Asp missense_variant 0.12
embB 4248565 c.2053delT frameshift_variant 0.18
ubiA 4269589 c.244delC frameshift_variant 0.14
ethA 4328034 c.-561C>A upstream_gene_variant 0.14
ethA 4328250 c.-777C>T upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0