TB-Profiler result

Run: SRR6045690
Summary

Run ID: SRR6045690

Sample name:

Date: 04-04-2023 12:03:35

Number of reads: 759731

Percentage reads mapped: 99.35

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 9139 p.Gln613Leu missense_variant 0.12
fgd1 491311 c.531_556delCGGCCCGGCGGTGGCCAAGTACGCCG frameshift_variant 0.11
fgd1 491340 c.562_563delGC frameshift_variant 0.1
rpoC 762425 c.-945C>A upstream_gene_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776451 p.Gly677Asp missense_variant 0.11
mmpL5 777798 c.682delA frameshift_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304893 p.Gly655Ser missense_variant 0.14
fbiC 1304916 c.1986T>C synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475760 n.2105_2106delGC non_coding_transcript_exon_variant 0.33
rrl 1475764 n.2107A>T non_coding_transcript_exon_variant 0.33
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.33
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.33
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.33
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.33
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.33
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.33
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.4
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715580 c.-248G>A upstream_gene_variant 0.13
ahpC 2726338 p.Val49Gly missense_variant 0.27
folC 2746176 p.Ala475Thr missense_variant 0.11
ribD 2986786 c.-53C>T upstream_gene_variant 0.11
ribD 2987437 p.Gly200Glu missense_variant 0.11
thyA 3074648 c.-177T>G upstream_gene_variant 0.33
Rv3236c 3612356 p.Glu254Val missense_variant 0.13
fbiB 3642685 p.Leu384Ser missense_variant 0.14
rpoA 3878578 c.-71C>A upstream_gene_variant 1.0
clpC1 4038314 c.2390dupG frameshift_variant 0.11
embC 4239985 c.123T>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338706 c.-185C>T upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0