TB-Profiler result

Run: SRR21658553
Summary

Run ID: SRR21658553

Sample name:

Date: 04-04-2023 02:23:10

Number of reads: 1206920

Percentage reads mapped: 99.51

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
gyrB 7158 c.1931_1933delCCG disruptive_inframe_deletion 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.18
rpoC 763085 c.-285C>T upstream_gene_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776740 p.Ile581Val missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473087 n.1242A>T non_coding_transcript_exon_variant 0.2
rrs 1473365 n.1520C>A non_coding_transcript_exon_variant 0.14
rrl 1473801 n.144T>A non_coding_transcript_exon_variant 0.4
rrl 1474165 n.508G>T non_coding_transcript_exon_variant 0.29
rrl 1474826 n.1169T>C non_coding_transcript_exon_variant 0.5
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.14
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.2
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.2
rrl 1475767 n.2110_2111insT non_coding_transcript_exon_variant 0.22
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168681 p.Phe644Leu missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338337 p.Cys62Tyr missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0