TB-Profiler result

Run: SRR21657441
Summary

Run ID: SRR21657441

Sample name:

Date: 04-04-2023 02:19:05

Number of reads: 601520

Percentage reads mapped: 99.62

Strain: lineage4.1.2.1

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
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 7799 c.498A>G synonymous_variant 0.11
gyrA 9036 p.Ala579Thr missense_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.29
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766980 p.Arg1204Leu missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779166 c.-686C>T upstream_gene_variant 0.12
mmpR5 779239 p.Ala84Ser missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304365 p.Gln479* stop_gained 0.14
fbiC 1305016 p.Thr696Ser missense_variant 0.1
fbiC 1305040 p.Ser704Thr missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473222 n.1377C>T non_coding_transcript_exon_variant 0.11
rpsA 1833353 c.-189C>A upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156415 c.-304C>G upstream_gene_variant 0.1
PPE35 2168131 p.Pro828Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289481 c.-240G>T upstream_gene_variant 0.12
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518420 p.Glu102Asp missense_variant 0.11
Rv2752c 3064714 p.His493Arg missense_variant 1.0
Rv2752c 3066156 c.36C>A synonymous_variant 0.11
thyX 3067846 p.Ala34Ser missense_variant 0.11
thyA 3074628 c.-157G>T upstream_gene_variant 0.14
thyA 3074648 c.-177T>G upstream_gene_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339206 p.Phe30Ser missense_variant 0.12
fbiD 3339566 p.Val150Ala missense_variant 0.22
fbiD 3339626 p.His170Pro missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474073 p.Leu23Met missense_variant 0.12
fbiA 3640510 c.-33G>T upstream_gene_variant 0.12
rpoA 3878141 c.342_366delCGGCGTCACCGTGCACAACCCCGGC frameshift_variant 0.12
ddn 3986826 c.-18G>T upstream_gene_variant 0.12
panD 4044416 c.-135C>T upstream_gene_variant 0.69
embC 4241468 p.Ala536Thr missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246950 p.Gln146Arg missense_variant 0.11
embB 4247017 c.504G>A synonymous_variant 0.15
embB 4249284 p.Glu924Gly missense_variant 0.13
embB 4249788 p.Gly1092Asp missense_variant 0.12
ubiA 4269757 p.Trp26Leu missense_variant 0.11
ubiA 4269893 c.-60G>T upstream_gene_variant 0.12
ethA 4328472 c.-999G>T upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0