TB-Profiler result

Run: SRR21677885

Summary

Run ID: SRR21677885

Sample name:

Date: 04-04-2023 02:49:33

Number of reads: 715888

Percentage reads mapped: 99.36

Strain: lineage4.1.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8944 p.Gly548Ala missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9415 p.Phe705Tyr missense_variant 0.12
mshA 575212 c.-136G>T upstream_gene_variant 0.12
mshA 575514 p.Pro56Gln missense_variant 0.18
mshA 576133 c.786A>G synonymous_variant 0.11
mshA 576178 c.833delA frameshift_variant 0.12
mshA 576717 p.Gly457Val missense_variant 0.2
mshA 576724 c.1377G>T synonymous_variant 0.2
ccsA 620037 c.147G>T synonymous_variant 0.11
rpoB 761320 p.Phe505Ser missense_variant 0.14
rpoB 762822 p.Asp1006Tyr missense_variant 0.18
rpoC 764175 p.Asp269Gly missense_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304474 p.Leu515Pro missense_variant 0.11
fbiC 1304662 p.Ser578Pro missense_variant 0.1
fbiC 1304961 c.2031C>A synonymous_variant 0.11
Rv1258c 1406154 p.Arg396Gln missense_variant 0.12
embR 1416281 p.Arg356Leu missense_variant 0.14
atpE 1461216 p.Gly58Cys missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673926 p.Met163Val missense_variant 0.1
rpsA 1834900 p.Ser453Arg missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102326 c.717G>A synonymous_variant 0.13
ndh 2102545 c.498G>A synonymous_variant 1.0
katG 2156408 c.-297C>T upstream_gene_variant 0.11
katG 2156456 c.-345T>G upstream_gene_variant 0.2
PPE35 2169725 c.888T>C synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726210 c.18T>C synonymous_variant 1.0
ahpC 2726661 p.Asn157Asp missense_variant 0.11
folC 2746601 p.Val333Ala missense_variant 0.1
pepQ 2859559 p.Gly287Val missense_variant 0.12
pepQ 2859918 c.501A>G synonymous_variant 0.15
Rv2752c 3065461 c.730delC frameshift_variant 0.12
thyX 3067660 p.His96Asn missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086982 p.Ala55Ser missense_variant 0.12
ald 3086987 p.Gln56His missense_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474043 p.Pro13Thr missense_variant 0.11
Rv3236c 3612026 p.Ile364Thr missense_variant 0.12
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3642184 p.Val217Ala missense_variant 0.13
alr 3841062 p.Phe120Ser missense_variant 0.1
rpoA 3877553 p.Glu319Lys missense_variant 1.0
ddn 3987213 p.Pro124Thr missense_variant 0.12
ddn 3987293 p.Glu150Asp missense_variant 0.11
embC 4239895 c.33C>T synonymous_variant 0.11
embC 4239899 p.Arg13Trp missense_variant 0.12
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244467 p.Ile412Asn missense_variant 0.15
embB 4246671 p.Thr53Asn missense_variant 0.17
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338272 p.Ser84Pro missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0