TB-Profiler result

Run: SRR18337408
Summary

Run ID: SRR18337408

Sample name:

Date: 03-04-2023 19:37:57

Number of reads: 900097

Percentage reads mapped: 97.53

Strain: lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 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
ccsA 619704 c.-187G>T upstream_gene_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302813 c.-118T>A upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1476404 n.2747G>A non_coding_transcript_exon_variant 0.11
rpsA 1833398 c.-144G>T upstream_gene_variant 0.13
rpsA 1834861 c.1320G>A synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155167 c.945C>T synonymous_variant 0.13
PPE35 2167953 p.Tyr887Phe missense_variant 0.13
PPE35 2169392 c.1221C>A synonymous_variant 0.13
Rv1979c 2222188 p.Leu326Pro missense_variant 0.11
Rv1979c 2222240 p.Leu309Met missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518068 c.-47C>A upstream_gene_variant 0.13
folC 2747651 c.-53C>A upstream_gene_variant 0.14
ribD 2987449 p.Glu204Gly missense_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475016 p.Gln337Arg missense_variant 0.11
alr 3840262 p.His387Asn missense_variant 0.12
rpoA 3878247 c.261G>T synonymous_variant 0.14
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242526 c.-707C>T upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0