TB-Profiler result

Run: SRR14164484
Summary

Run ID: SRR14164484

Sample name:

Date: 03-04-2023 09:53:34

Number of reads: 897241

Percentage reads mapped: 99.56

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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
fgd1 491705 p.Leu308Pro missense_variant 0.12
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.45
mshA 576111 p.Ala255Gly missense_variant 0.22
rpoB 760074 p.Ile90Phe missense_variant 0.11
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761033 c.1227G>A synonymous_variant 0.13
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 1304080 p.Ala384Thr missense_variant 0.14
Rv1258c 1407489 c.-149G>A upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475955 n.2298A>G non_coding_transcript_exon_variant 0.11
fabG1 1673546 p.Ala36Val missense_variant 0.11
inhA 1674960 c.759C>G synonymous_variant 0.12
rpsA 1834474 c.933C>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154746 p.Ala456Thr missense_variant 0.11
katG 2155337 p.Asp259Asn missense_variant 0.11
PPE35 2169741 p.Asn291Ser missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290130 c.-889C>T upstream_gene_variant 0.11
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3066299 c.-108C>T upstream_gene_variant 1.0
thyA 3074613 c.-142C>G upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038930 p.Ser592Leu missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.22
embB 4246937 p.Ser142Pro missense_variant 0.11
aftB 4267542 c.1294delT frameshift_variant 0.14
aftB 4268008 p.Gly277Arg missense_variant 0.11
ethA 4327587 c.-114C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0