TB-Profiler result

Run: SRR6789614
Summary

Run ID: SRR6789614

Sample name:

Date: 04-04-2023 16:03:36

Number of reads: 830970

Percentage reads mapped: 97.66

Strain: lineage4.3.2.1

Drug-resistance: Other

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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
lineage4.3 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 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
folC 2747454 p.Arg49Trp missense_variant 0.12 para-aminosalicylic_acid
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
gyrB 6525 p.Arg429His missense_variant 0.11
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
mshA 576153 p.Ala269Val missense_variant 0.12
ccsA 620540 p.Arg217Leu missense_variant 0.11
rpoB 762189 p.Ile795Phe missense_variant 0.11
rpoB 762369 p.Leu855Val missense_variant 0.12
rpoC 763648 c.279C>T synonymous_variant 0.13
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
fbiC 1303175 c.247delG frameshift_variant 0.11
embR 1416463 c.885C>T synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.25
rpsA 1834208 p.Gly223Ser missense_variant 0.12
rpsA 1834333 c.792C>T synonymous_variant 0.13
tlyA 1917953 p.Ala5Val missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918528 p.Val197Leu missense_variant 0.11
tlyA 1918600 p.His221Asn missense_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.54
PPE35 2170053 p.Thr187Ser missense_variant 0.61
Rv1979c 2222632 p.Ile178Asn missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289271 c.-30C>G upstream_gene_variant 0.11
kasA 2518598 p.Ala162Thr missense_variant 0.11
kasA 2518606 c.492G>C synonymous_variant 0.11
kasA 2518609 p.Met165Ile missense_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473928 c.-79T>C upstream_gene_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474069 c.63C>G synonymous_variant 0.11
fprA 3474268 p.Val88Phe missense_variant 0.13
fprA 3474400 p.Tyr132His missense_variant 0.12
Rv3236c 3612270 p.Asp283Tyr missense_variant 0.19
Rv3236c 3613198 c.-82C>G upstream_gene_variant 0.12
fbiB 3642169 p.Thr212Arg missense_variant 0.12
fbiB 3642646 p.Thr371Ile missense_variant 0.15
rpoA 3878362 p.Ala49Glu missense_variant 0.15
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4239805 c.-58T>A upstream_gene_variant 0.15
embC 4241313 p.Ala484Glu missense_variant 0.11
embC 4241549 p.Gly563* stop_gained 0.15
embC 4241830 p.Lys656Asn missense_variant 1.0
embC 4242196 c.2334A>T synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243608 p.Ala126Pro missense_variant 0.13
embA 4243680 p.Ala150Ser missense_variant 0.11
embA 4243820 c.588C>A synonymous_variant 0.14
embA 4243821 p.Thr197Ser missense_variant 0.17
embA 4245403 p.Thr724Asn missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.43
embB 4246555 c.42G>C synonymous_variant 0.45
embB 4246556 p.Ala15Pro missense_variant 0.45
embB 4246563 p.Leu17Trp missense_variant 0.17
embB 4246567 c.54G>T synonymous_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0