TB-Profiler result

Run: ERR2503368
Summary

Run ID: ERR2503368

Sample name:

Date: 31-03-2023 18:25:07

Number of reads: 320017

Percentage reads mapped: 99.57

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;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 6682 c.-620G>A upstream_gene_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8708 c.1407G>T synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.33
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.27
rpoB 760106 c.300G>A synonymous_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764979 p.Asp537Gly missense_variant 0.2
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766581 p.Gly1071Val missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779000 p.Asn4Ser missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406859 p.Gly161Asp missense_variant 0.15
atpE 1460874 c.-171G>T upstream_gene_variant 0.13
atpE 1460914 c.-131G>A upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476310 n.2653G>T non_coding_transcript_exon_variant 0.33
inhA 1674655 p.Ser152Gly missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918486 p.Pro183Thr missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2715319 p.Leu5Pro missense_variant 0.11
Rv2752c 3065070 c.1122C>T synonymous_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474449 p.Ala148Asp missense_variant 0.1
fbiB 3642578 c.1044C>A synonymous_variant 0.15
panD 4044451 c.-170G>T upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245140 c.1908C>T synonymous_variant 0.12
embB 4247426 p.Gly305Thr missense_variant 0.12
embB 4248696 p.Arg728Leu missense_variant 1.0
aftB 4268395 p.Leu148Met missense_variant 0.29
aftB 4268769 p.Gln23Arg missense_variant 0.4
ubiA 4269382 p.Cys151Phe missense_variant 0.25
whiB6 4338513 c.9C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408197 c.6T>G synonymous_variant 0.12