TB-Profiler result

Run: SRR14782225
Summary

Run ID: SRR14782225

Sample name:

Date: 03-04-2023 11:17:26

Number of reads: 8102257

Percentage reads mapped: 99.62

Strain: lineage4.8;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 0.5
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.49
lineage4.1.2 Euro-American T;H None 0.51
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.51
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 0.53
gyrA 9304 p.Gly668Asp missense_variant 0.47
fgd1 491591 p.Lys270Met missense_variant 0.46
mshA 575679 p.Asn111Ser missense_variant 0.51
mshA 576108 p.Ala254Gly missense_variant 0.29
mshA 576482 p.Val379Leu missense_variant 0.17
rpoB 760115 c.309C>T synonymous_variant 0.48
rpoC 765150 p.Gly594Glu missense_variant 0.53
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.51
inhA 1673510 c.-692A>G upstream_gene_variant 0.52
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.47
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 0.46
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.52
embC 4241164 c.1302G>A synonymous_variant 0.54
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.56
embB 4246584 p.Arg24Pro missense_variant 0.31
ubiA 4269864 c.-31C>T upstream_gene_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338623 c.-112_-103delGATCTATGCC upstream_gene_variant 0.54