TB-Profiler result

Run: ERR2229443
Summary

Run ID: ERR2229443

Sample name:

Date: 31-03-2023 17:11:44

Number of reads: 398488

Percentage reads mapped: 99.35

Strain: lineage4.8

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.99
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
ethA 4326879 c.594delC frameshift_variant 0.5 ethionamide
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
fgd1 491054 p.Ala91Asp missense_variant 0.22
ccsA 620375 p.Pro162Leu missense_variant 0.29
rpoB 762183 p.Gly793Arg missense_variant 0.17
rpoC 763378 c.9C>T synonymous_variant 0.12
rpoC 765053 p.Ser562Pro missense_variant 0.29
rpoC 765261 p.Ala631Asp missense_variant 0.4
rpoC 766234 c.2867delG frameshift_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775743 p.Gly913Asp missense_variant 0.13
mmpL5 776285 c.2196C>A synonymous_variant 0.12
mmpL5 776460 p.Ala674Val missense_variant 0.13
mmpL5 778474 p.Val3Met missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800669 c.-140G>T upstream_gene_variant 0.2
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304693 p.Ala588Glu missense_variant 0.22
embR 1417115 p.Asn78Ile missense_variant 0.2
atpE 1461013 c.-32C>T upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472246 n.401G>T non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475066 n.1409C>A non_coding_transcript_exon_variant 0.2
rrl 1475632 n.1975C>T non_coding_transcript_exon_variant 0.2
fabG1 1673380 c.-60C>G upstream_gene_variant 0.38
fabG1 1673557 p.His40Tyr missense_variant 0.67
fabG1 1673891 p.Ala151Val missense_variant 0.12
inhA 1673991 c.-211C>T upstream_gene_variant 0.17
inhA 1674554 c.356delG frameshift_variant 0.5
rpsA 1834005 p.Met155Lys missense_variant 0.22
rpsA 1834161 p.Gln207Arg missense_variant 0.22
rpsA 1834549 p.Gln336His missense_variant 0.2
rpsA 1834605 p.Arg355Leu missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153943 p.Asp723Glu missense_variant 0.2
katG 2156234 c.-123G>T upstream_gene_variant 0.14
katG 2156342 c.-231G>T upstream_gene_variant 0.25
PPE35 2168140 p.Ala825Thr missense_variant 0.2
PPE35 2168143 p.Phe824Leu missense_variant 0.18
PPE35 2168150 c.2463T>C synonymous_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.2
PPE35 2170053 p.Thr187Ser missense_variant 0.19
PPE35 2170147 p.Ser156Ala missense_variant 0.19
PPE35 2170159 p.Ala152Ser missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288936 c.306G>T synonymous_variant 0.15
pncA 2289033 p.Pro70Gln missense_variant 0.2
pncA 2290185 c.-944G>T upstream_gene_variant 0.33
pepQ 2859427 p.Pro331His missense_variant 0.21
pepQ 2859447 c.972G>A synonymous_variant 0.2
Rv2752c 3065138 p.Ile352Phe missense_variant 0.18
ald 3087377 c.558C>A synonymous_variant 0.12
ald 3087527 c.712delG frameshift_variant 0.18
fprA 3474237 c.231C>A synonymous_variant 0.14
Rv3236c 3612306 p.Ala271Pro missense_variant 0.17
Rv3236c 3612395 p.Ala241Asp missense_variant 0.12
Rv3236c 3612659 p.Ser153Trp missense_variant 0.29
fbiA 3640804 p.Ala88Thr missense_variant 0.2
ddn 3986943 p.Gly34Trp missense_variant 0.22
panD 4043989 p.Ala98Asp missense_variant 0.22
panD 4044075 c.207T>C synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243229 c.-4C>A upstream_gene_variant 0.13
embB 4248916 c.2403G>T synonymous_variant 0.22
embB 4249611 p.Asn1033Thr missense_variant 0.18
aftB 4266999 p.Cys613Phe missense_variant 0.13
aftB 4268170 p.Ala223Thr missense_variant 0.22
aftB 4268602 p.Leu79Met missense_variant 0.25
ethA 4326856 p.Gln206His missense_variant 0.29
ethA 4326969 p.Glu169* stop_gained 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0