TB-Profiler result

Run: SRR6832080
Summary

Run ID: SRR6832080

Sample name:

Date: 04-04-2023 17:12:48

Number of reads: 515861

Percentage reads mapped: 99.43

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
gyrB 5359 c.120C>G synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8534 c.1233G>A synonymous_variant 1.0
gyrA 9190 p.Gly630Val missense_variant 0.67
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764869 c.1500C>T synonymous_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775751 c.2730C>T synonymous_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472301 n.456C>G non_coding_transcript_exon_variant 0.2
rrl 1475642 n.1985T>A non_coding_transcript_exon_variant 0.13
fabG1 1674076 p.Thr213Pro missense_variant 0.33
tlyA 1918513 p.Val192Phe missense_variant 0.4
ndh 2102257 c.786C>T synonymous_variant 0.12
katG 2156173 c.-62C>A upstream_gene_variant 0.18
PPE35 2169048 p.Ile522Thr missense_variant 1.0
PPE35 2170252 p.Val121Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290088 c.-847G>A upstream_gene_variant 0.17
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2860249 p.Asp57Val missense_variant 0.25
Rv2752c 3065439 c.753C>T synonymous_variant 1.0
Rv2752c 3065949 c.243C>T synonymous_variant 1.0
ald 3086751 c.-69T>A upstream_gene_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640354 c.-189C>T upstream_gene_variant 1.0
fbiA 3641317 p.Cys259Arg missense_variant 0.33
fbiB 3642763 p.Asp410Ala missense_variant 1.0
rpoA 3877687 p.Glu274Val missense_variant 0.17
rpoA 3878639 c.-132C>G upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4248055 c.1542G>A synonymous_variant 0.17
ubiA 4269299 p.Ile179Val missense_variant 0.5
ethA 4327158 p.Ser106Gly missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0