TB-Profiler result

Run: SRR14179701
Summary

Run ID: SRR14179701

Sample name:

Date: 03-04-2023 10:18:18

Number of reads: 23988374

Percentage reads mapped: 87.39

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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.13
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.15
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.16
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.15
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.15
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.16
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.17
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.17
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.17
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.16
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.16
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.17
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.17
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.17
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.17
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
thyA 3074471 p.Val1Met missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247050 c.537C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0