TB-Profiler result

Run: SRR2101475
Summary

Run ID: SRR2101475

Sample name:

Date: 03-04-2023 23:44:26

Number of reads: 721263

Percentage reads mapped: 99.6

Strain: lineage4.3.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
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 491670 p.Lys296Asn missense_variant 0.14
fgd1 491723 p.Gly314Val missense_variant 0.12
ccsA 620748 c.858T>G synonymous_variant 0.21
rpoB 759620 c.-187A>C upstream_gene_variant 0.23
rpoC 764237 p.Leu290Ile missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_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 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472841 n.996G>T non_coding_transcript_exon_variant 0.14
rrl 1475715 n.2058G>T non_coding_transcript_exon_variant 0.15
rrl 1476232 n.2575G>T non_coding_transcript_exon_variant 0.12
rpsA 1833554 p.Thr5Pro missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169863 c.750C>T synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746947 p.Gly218Cys missense_variant 0.12
Rv2752c 3065319 c.873C>T synonymous_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
Rv3236c 3612324 p.Pro265Thr missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240710 p.Trp283Leu missense_variant 0.13
embC 4241528 p.Arg556Ser missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244249 c.1017C>A synonymous_variant 0.18
aftB 4268512 c.324delC frameshift_variant 0.12
aftB 4269459 c.-623G>T upstream_gene_variant 0.14
aftB 4269501 c.-665G>T upstream_gene_variant 0.18
ethR 4327597 p.Thr17Ala missense_variant 0.13
ethR 4327682 p.Ile45Thr missense_variant 0.1
ethA 4327776 c.-303C>T upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0