TB-Profiler result

Run: SRR5341248
Summary

Run ID: SRR5341248

Sample name:

Date: 04-04-2023 10:10:26

Number of reads: 955559

Percentage reads mapped: 99.57

Strain: lineage4.4

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
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 620018 p.Gly43Val missense_variant 0.14
rpoB 761152 p.Leu449Gln missense_variant 0.19
rpoC 767316 p.Arg1316His missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461042 c.-3G>T upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474817 n.1160G>A non_coding_transcript_exon_variant 0.11
rrl 1475168 n.1511G>C non_coding_transcript_exon_variant 0.13
fabG1 1673357 c.-83G>A upstream_gene_variant 0.11
fabG1 1673359 c.-81T>C upstream_gene_variant 0.12
fabG1 1673361 c.-79C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.88
PPE35 2170053 p.Thr187Ser missense_variant 0.88
PPE35 2170558 p.Ala19Pro missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.22
kasA 2518609 p.Met165Ile missense_variant 0.15
eis 2714523 p.His270Gln missense_variant 1.0
Rv2752c 3064677 p.Glu505Asp missense_variant 0.2
Rv2752c 3065715 c.477T>C synonymous_variant 1.0
Rv2752c 3065797 c.394delC frameshift_variant 0.15
thyX 3067340 c.606G>A synonymous_variant 0.12
thyX 3068027 c.-82C>T upstream_gene_variant 0.12
thyA 3074648 c.-177T>G upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339741 c.624G>T synonymous_variant 0.12
fbiD 3339744 c.627A>C synonymous_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568525 p.Cys52Tyr missense_variant 1.0
fbiB 3642154 p.Gly207Asp missense_variant 0.13
alr 3841161 p.Ala87Val missense_variant 0.12
embC 4240501 p.Ser213Arg missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243324 p.Val31Ala missense_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 0.2
embB 4246556 p.Ala15Pro missense_variant 0.21
embB 4246563 p.Leu17Trp missense_variant 0.1
embB 4247548 c.1035C>T synonymous_variant 1.0
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407606 c.597C>T synonymous_variant 1.0
gid 4408195 p.Pro3Gln missense_variant 0.13