TB-Profiler result

Run: SRR2101457

Summary

Run ID: SRR2101457

Sample name:

Date: 03-04-2023 23:43:46

Number of reads: 287821

Percentage reads mapped: 99.84

Strain: lineage4.8.1

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
lineage4.8.1 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 9304 p.Gly668Asp missense_variant 0.15
fgd1 491292 c.510G>T synonymous_variant 0.12
mshA 576457 c.1110G>T synonymous_variant 0.22
rpoB 760933 p.Gly376Val missense_variant 0.1
rpoB 762297 c.2491C>T synonymous_variant 0.12
rpoC 766736 p.Arg1123Trp missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778018 p.Gly155Ser missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303552 p.Ala208Thr missense_variant 0.14
fbiC 1303634 p.Asp235Gly missense_variant 0.17
embR 1416371 p.Ser326Ile missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473346 n.1501G>T non_coding_transcript_exon_variant 0.1
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474478 n.821C>A non_coding_transcript_exon_variant 0.11
fabG1 1673318 c.-122C>G upstream_gene_variant 0.12
rpsA 1833968 p.Gly143Trp missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918485 p.Lys182Asn missense_variant 0.15
katG 2153941 p.Phe724Cys missense_variant 0.15
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288937 p.Ala102Val missense_variant 0.18
Rv2752c 3067091 c.-900C>A upstream_gene_variant 0.12
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fbiB 3641958 p.Val142Ile missense_variant 0.18
fbiB 3642874 p.Leu447Arg missense_variant 1.0
alr 3840544 p.Val293Leu missense_variant 0.11
alr 3841612 c.-193_-192insC upstream_gene_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248992 p.Asn827Tyr missense_variant 0.15
aftB 4268629 p.Gly70Cys missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0