TB-Profiler result

Run: SRR21657458
Summary

Run ID: SRR21657458

Sample name:

Date: 04-04-2023 02:19:44

Number of reads: 960509

Percentage reads mapped: 99.52

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 0.99
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 5359 c.120C>T synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491625 c.843C>G synonymous_variant 1.0
mshA 575246 c.-102A>G upstream_gene_variant 0.13
mshA 575403 p.Val19Ala missense_variant 0.11
mshA 576632 p.Ser429Pro missense_variant 0.11
ccsA 619831 c.-60T>G upstream_gene_variant 0.25
ccsA 620029 c.139C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775966 p.Ala839Ser missense_variant 0.11
mmpL5 776097 c.2383delA frameshift_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472351 n.506G>T non_coding_transcript_exon_variant 0.17
rrs 1472509 n.664G>A non_coding_transcript_exon_variant 0.17
rrl 1475113 n.1456C>T non_coding_transcript_exon_variant 0.67
tlyA 1917903 c.-37G>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.13
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290077 c.-836G>T upstream_gene_variant 1.0
folC 2746226 p.Gly458Val missense_variant 0.12
ribD 2987484 p.Ala216Thr missense_variant 0.14
ald 3087354 p.Ala179Pro missense_variant 0.12
fbiD 3339618 c.501C>A synonymous_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269382 p.Cys151Phe missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0