TB-Profiler result

Run: SRR18213957
Summary

Run ID: SRR18213957

Sample name:

Date: 03-04-2023 19:36:28

Number of reads: 4167414

Percentage reads mapped: 99.41

Strain: lineage4.2.1.1

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
lineage4.2 Euro-American H;T;LAM None 0.99
lineage4.2.1 Euro-American (TUR) H3;H4 None 1.0
lineage4.2.1.1 Euro-American (TUR) H3;H4 None 0.99
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 6321 p.Lys361Thr missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8222 c.921C>T synonymous_variant 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.27
rpoB 759620 c.-187A>C upstream_gene_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777427 p.Thr352Pro missense_variant 0.16
mmpL5 777451 p.Val344Leu missense_variant 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304159 p.Val410Gly missense_variant 0.16
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169879 p.Phe245Cys missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.24
ahpC 2726341 p.Val50Gly missense_variant 0.2
pepQ 2860122 p.Ser99Arg missense_variant 1.0
ribD 2987323 p.Val162Gly missense_variant 0.25
thyX 3067202 c.744C>T synonymous_variant 0.99
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339153 p.Leu12Phe missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878590 c.-84delC upstream_gene_variant 0.93
clpC1 4038857 c.1848C>A synonymous_variant 0.29
panD 4044393 c.-112G>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408213 c.-11C>T upstream_gene_variant 0.99