TB-Profiler result

Run: ERR1679648
Summary

Run ID: ERR1679648

Sample name:

Date: 31-03-2023 14:55:31

Number of reads: 515953

Percentage reads mapped: 99.63

Strain: lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 1.0
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 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 9304 p.Gly668Asp missense_variant 1.0
mshA 575373 p.Gly9Ala missense_variant 0.12
rpoC 767223 c.3857delC frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
mmpR5 779311 p.Ile108Val missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673945 p.Arg169His missense_variant 0.11
rpsA 1833790 c.249T>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918264 p.Val109Leu missense_variant 0.13
tlyA 1918510 p.Gln191* stop_gained 0.12
ndh 2101839 p.Ala402Thr missense_variant 0.22
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.89
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289247 c.-6G>A upstream_gene_variant 0.1
pncA 2290207 c.-966G>A upstream_gene_variant 0.17
kasA 2518449 p.Val112Asp missense_variant 0.12
kasA 2518454 p.Thr114Ala missense_variant 0.12
kasA 2518733 p.Ile207Val missense_variant 0.2
eis 2715093 c.240C>T synonymous_variant 0.29
folC 2746977 p.Asp208Asn missense_variant 1.0
Rv2752c 3065058 c.1134C>T synonymous_variant 0.1
Rv2752c 3065382 p.Met270Ile missense_variant 0.14
Rv2752c 3065790 c.402C>T synonymous_variant 0.11
thyX 3067474 p.Pro158Ala missense_variant 1.0
ald 3086745 c.-75G>C upstream_gene_variant 1.0
ald 3086809 c.-11_-10insA upstream_gene_variant 0.18
Rv3083 3448567 p.His22Asp missense_variant 1.0
Rv3083 3448954 p.Pro151Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640772 p.Arg77His missense_variant 0.17
fbiB 3641908 p.Pro125Arg missense_variant 0.11
rpoA 3877484 p.Ala342Thr missense_variant 0.11
embC 4241556 p.Ser565Ile missense_variant 0.22
embC 4241579 p.Ile573Phe missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243121 p.Ser1087Gly missense_variant 0.1
embA 4243687 p.Phe152Tyr missense_variant 0.14
aftB 4267272 p.Lys522Arg missense_variant 1.0
aftB 4268227 p.Ala204Thr missense_variant 0.1
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338610 c.-89G>T upstream_gene_variant 1.0