TB-Profiler result

Run: ERR4816771

Summary

Run ID: ERR4816771

Sample name:

Date: 01-04-2023 14:37:17

Number of reads: 147414

Percentage reads mapped: 95.0

Strain: lineage4

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
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
thyA 3074408 p.Thr22Ala missense_variant 1.0 para-aminosalicylic_acid
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 6346 c.-956C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491247 c.465C>T synonymous_variant 1.0
ccsA 619990 p.Phe34Leu missense_variant 0.67
rpoB 759938 c.132T>G synonymous_variant 1.0
rpoB 762017 p.Glu737Asp missense_variant 0.67
rpoC 763184 c.-186C>T upstream_gene_variant 1.0
rpoC 766196 p.Asp943Tyr missense_variant 0.33
rpoC 767247 p.Tyr1293Cys missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779065 p.Tyr26His missense_variant 0.33
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801033 c.225C>T synonymous_variant 0.4
fbiC 1304190 c.1260G>A synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473317 n.1472G>A non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
katG 2156470 c.-360delT upstream_gene_variant 0.4
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2222557 p.Thr203Asn missense_variant 0.67
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746349 p.Leu417Gln missense_variant 0.67
ribD 2987105 c.267C>T synonymous_variant 1.0
thyA 3074671 c.-200G>A upstream_gene_variant 0.29
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339633 c.516T>C synonymous_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474827 p.Ser274Cys missense_variant 0.4
fbiB 3642577 p.Val348Gly missense_variant 0.18
clpC1 4038311 p.Gln798His missense_variant 0.67
clpC1 4038585 p.Pro707Leu missense_variant 0.29
clpC1 4040798 c.-94G>T upstream_gene_variant 0.33
embC 4240699 c.837C>T synonymous_variant 0.2
embA 4246047 p.Ala939Thr missense_variant 0.22
embB 4248335 p.Ala608Thr missense_variant 0.5
embB 4249117 c.2604G>A synonymous_variant 0.33
embB 4249594 c.3081G>A synonymous_variant 1.0
ubiA 4269999 c.-166G>T upstream_gene_variant 0.4
ethA 4327528 c.-55C>T upstream_gene_variant 0.5
ethA 4328376 c.-903G>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407772 p.Lys144Arg missense_variant 1.0