TB-Profiler result

Run: SRR6964657
Summary

Run ID: SRR6964657

Sample name:

Date: 04-04-2023 18:20:38

Number of reads: 526732

Percentage reads mapped: 99.52

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 6927 p.Leu563Trp missense_variant 0.25
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 490676 c.-107G>A upstream_gene_variant 0.1
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619831 c.-60T>G upstream_gene_variant 0.25
ccsA 620829 c.939G>C synonymous_variant 1.0
rpoB 759734 c.-73C>T upstream_gene_variant 0.11
rpoB 760507 p.Ala234Val missense_variant 0.11
rpoB 761152 p.Leu449Gln missense_variant 0.17
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 778601 p.Asn102Ser missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407084 p.Val86Gly missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472053 n.208A>G non_coding_transcript_exon_variant 0.22
rrs 1472706 n.861C>T non_coding_transcript_exon_variant 1.0
rrl 1475949 n.2292A>T non_coding_transcript_exon_variant 0.25
rrl 1476177 n.2523delC non_coding_transcript_exon_variant 0.4
inhA 1674394 p.Val65Leu missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223013 p.Tyr51Cys missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ribD 2986781 c.-58A>T upstream_gene_variant 0.11
Rv2752c 3067146 c.-955G>T upstream_gene_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087813 p.Ala332Thr missense_variant 0.14
ald 3087821 c.1002G>A synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474034 p.Gly10Cys missense_variant 0.13
fbiB 3640686 c.-849C>T upstream_gene_variant 0.12
rpoA 3877607 p.Leu301Met missense_variant 0.1
rpoA 3877831 p.Asn226Ser missense_variant 0.13
ddn 3987262 p.Thr140Ile missense_variant 0.12
panD 4044014 p.Tyr90His missense_variant 0.11
panD 4044377 c.-96G>A upstream_gene_variant 1.0
embC 4241293 c.1431G>A synonymous_variant 0.1
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267423 c.1413delG frameshift_variant 0.11
ubiA 4269299 p.Ile179Val missense_variant 0.17
ethA 4327677 c.-204G>A upstream_gene_variant 0.11
ethA 4328286 c.-813G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0