TB-Profiler result

Run: SRR14782468
Summary

Run ID: SRR14782468

Sample name:

Date: 03-04-2023 11:26:53

Number of reads: 1189165

Percentage reads mapped: 99.54

Strain: lineage4.1.2

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 0.99
lineage4.1.2 Euro-American T;H None 0.98
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 7027 p.Lys596Asn missense_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
gyrA 9647 c.2346C>G synonymous_variant 0.14
fgd1 491315 p.Gly178Ala missense_variant 0.26
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.13
mshA 576113 p.Arg256Gly missense_variant 0.35
mshA 576456 p.Val370Gly missense_variant 0.23
mshA 576613 c.1266A>C synonymous_variant 0.4
mshA 576616 c.1269G>C synonymous_variant 0.38
ccsA 620623 p.Ile245Val missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761482 p.Ala559Gly missense_variant 0.2
rpoC 765150 p.Gly594Glu missense_variant 0.97
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776699 p.Ile594Met missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473645 n.-12delT upstream_gene_variant 0.95
fabG1 1673553 p.Asp38Glu missense_variant 0.53
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918441 p.Val168Phe missense_variant 0.29
tlyA 1918453 p.Ser172Ala missense_variant 0.3
ndh 2102817 p.Leu76Val missense_variant 0.11
PPE35 2170065 p.Ala183Gly missense_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.18
pepQ 2860159 p.Ala87Gly missense_variant 0.15
Rv2752c 3064823 p.Val457Leu missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339751 p.Ala212Pro missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474057 p.Phe17Leu missense_variant 0.22
fprA 3474213 p.Lys69Asn missense_variant 0.17
whiB7 3568428 c.252A>G synonymous_variant 1.0
whiB7 3568431 c.249C>G synonymous_variant 0.25
rpoA 3878597 c.-90G>C upstream_gene_variant 1.0
rpoA 3878600 c.-93G>C upstream_gene_variant 1.0
clpC1 4040235 p.Gly157Ala missense_variant 0.26
embC 4240409 p.Pro183Ala missense_variant 0.46
embC 4240480 c.618G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.53
embB 4246529 p.Ser6Gly missense_variant 0.33
embB 4247016 p.Ser168Trp missense_variant 0.19
embB 4247020 c.507C>G synonymous_variant 0.21
whiB6 4338200 p.Asp108His missense_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0