TB-Profiler result

Run: SRR21277768
Summary

Run ID: SRR21277768

Sample name:

Date: 04-04-2023 01:40:46

Number of reads: 13869511

Percentage reads mapped: 97.73

Strain: lineage4.4.2

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.2 Euro-American T1;T2 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
mshA 576460 c.1113C>A synonymous_variant 0.11
ccsA 620002 p.Gln38Lys missense_variant 0.18
ccsA 620128 p.Gly80Trp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303120 p.Arg64Cys missense_variant 0.11
fbiC 1304196 c.1266C>A synonymous_variant 0.14
fbiC 1304208 c.1278C>T synonymous_variant 0.22
fbiC 1304218 p.Pro430Ser missense_variant 0.15
Rv1258c 1407058 p.Gly95Trp missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.95
tlyA 1918572 c.633C>A synonymous_variant 0.16
katG 2155743 c.369G>T synonymous_variant 0.14
PPE35 2170064 c.549G>T synonymous_variant 0.25
PPE35 2170079 c.534G>A synonymous_variant 0.25
PPE35 2170103 c.510C>A synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519124 p.Tyr337Phe missense_variant 0.12
pepQ 2860154 p.Glu89* stop_gained 0.11
pepQ 2860582 c.-164A>T upstream_gene_variant 0.17
Rv2752c 3066099 p.Met31Ile missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339595 p.Pro160Thr missense_variant 0.15
fbiD 3339721 p.Gly202Trp missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642273 p.Glu247* stop_gained 0.11
embC 4242498 p.Arg879Met missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246508 c.-6G>A upstream_gene_variant 1.0
embB 4247887 c.1374C>T synonymous_variant 0.11
aftB 4268928 c.-92C>T upstream_gene_variant 0.99
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0