TB-Profiler result

Run: SRR023426
Summary

Run ID: SRR023426

Sample name:

Date: 02-04-2023 14:11:01

Number of reads: 401116

Percentage reads mapped: 96.06

Strain: lineage4

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
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 5979 p.Lys247Arg missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8525 c.1224C>A synonymous_variant 0.33
gyrA 9487 p.Gly729Val missense_variant 0.29
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761711 c.1905C>A synonymous_variant 1.0
rpoB 762561 p.Arg919Trp missense_variant 0.33
rpoC 764472 p.Asn368Ile missense_variant 0.15
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 767231 p.Tyr1288Asn missense_variant 0.33
mmpL5 775912 p.Arg857Trp missense_variant 0.4
mmpL5 778955 c.-475G>T upstream_gene_variant 0.22
mmpL5 778977 c.-497A>G upstream_gene_variant 0.17
mmpR5 779480 p.Asp164Gly missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781829 c.270G>T synonymous_variant 0.33
fbiC 1303358 p.Ala143Glu missense_variant 0.5
embR 1416246 p.His368Tyr missense_variant 0.29
embR 1417368 c.-21G>A upstream_gene_variant 0.33
embR 1417399 c.-52G>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472382 n.537G>T non_coding_transcript_exon_variant 0.22
PPE35 2170652 c.-40C>A upstream_gene_variant 0.13
Rv1979c 2222537 p.Val210Ile missense_variant 0.25
pncA 2289941 c.-700C>T upstream_gene_variant 0.67
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3065885 p.Val103Ile missense_variant 0.22
thyA 3074372 p.Met34Val missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087050 c.231G>A synonymous_variant 0.5
ald 3087763 p.Asn315Ile missense_variant 0.5
Rv3083 3449811 c.1308C>T synonymous_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640379 c.-164T>C upstream_gene_variant 1.0
fbiA 3641120 p.Ser193Tyr missense_variant 0.33
embB 4247351 p.Asp280Tyr missense_variant 0.22
embB 4247925 p.Arg471Leu missense_variant 0.67
aftB 4268135 c.702G>T synonymous_variant 0.5