TB-Profiler result

Run: ERR2514446
Summary

Run ID: ERR2514446

Sample name:

Date: 31-03-2023 20:20:39

Number of reads: 883442

Percentage reads mapped: 99.54

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 None 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
rpoC 767048 p.Gln1227Lys missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775987 p.His832Tyr missense_variant 0.11
mmpL5 775990 c.2491C>T synonymous_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303937 p.Asn336Ser missense_variant 0.1
fbiC 1304853 c.1923C>A synonymous_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475353 n.1696A>G non_coding_transcript_exon_variant 0.25
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.15
rpsA 1834249 c.708T>C synonymous_variant 0.11
rpsA 1834306 c.765T>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103231 c.-189G>T upstream_gene_variant 0.11
PPE35 2169811 p.Gly268* stop_gained 0.18
PPE35 2169879 p.Phe245Cys missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.1
PPE35 2169910 p.Asn235Tyr missense_variant 0.11
PPE35 2170189 p.Glu142Gln missense_variant 0.11
Rv1979c 2223284 c.-120C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518864 c.750G>C synonymous_variant 0.12
pepQ 2859655 p.Glu255Gly missense_variant 0.1
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339367 p.Thr84Ser missense_variant 0.13
Rv3083 3449069 p.Ala189Val missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474144 p.Trp46Cys missense_variant 0.1
fbiB 3642704 c.1170G>A synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248565 c.2052C>A synonymous_variant 0.14
ethA 4326067 c.1407G>C synonymous_variant 1.0
ethR 4327699 p.Ala51Ser missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408149 c.54T>C synonymous_variant 1.0