TB-Profiler result

Run: ERR2514116

Summary

Run ID: ERR2514116

Sample name:

Date: 31-03-2023 20:07:43

Number of reads: 957976

Percentage reads mapped: 99.66

Strain: lineage4.4.1.1

Drug-resistance: Other


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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 0.99
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
gid 4407630 c.559_572delAGGGTGGTGACATG frameshift_variant 1.0 streptomycin
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
rpoB 759615 c.-192A>C upstream_gene_variant 0.33
rpoC 763827 p.Ala153Asp missense_variant 0.11
rpoC 765647 p.Phe760Leu missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303752 c.822A>G synonymous_variant 1.0
fbiC 1304490 c.1560C>G synonymous_variant 0.12
Rv1258c 1406269 p.Ala358Thr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476247 n.2590A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288689 p.Ser185Gly missense_variant 0.11
pncA 2289775 c.-534C>T upstream_gene_variant 0.13
pncA 2289844 c.-603C>T upstream_gene_variant 0.18
pepQ 2860170 c.249G>T synonymous_variant 0.11
Rv2752c 3065364 c.828G>C synonymous_variant 1.0
thyX 3067499 p.Lys149Asn missense_variant 0.11
thyA 3074561 c.-90T>C upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339262 p.Ala49Pro missense_variant 0.1
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3642047 c.513G>C synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249455 c.2945_2947delAGC disruptive_inframe_deletion 1.0
aftB 4267968 p.Leu290Gln missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0