TB-Profiler result

Run: ERR2229254
Summary

Run ID: ERR2229254

Sample name:

Date: 31-03-2023 16:55:09

Number of reads: 1462579

Percentage reads mapped: 97.89

Strain: lineage4.8

Drug-resistance: Sensitive

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 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 6582 p.Thr448Met missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 0.98
gyrA 9246 p.Val649Leu missense_variant 0.2
fgd1 491383 p.Glu201* stop_gained 0.12
mshA 576108 p.Ala254Gly missense_variant 0.32
mshA 576152 p.Ala269Ser missense_variant 0.17
mshA 576396 p.Ser350Asn missense_variant 0.18
mshA 576398 p.Tyr351Asp missense_variant 0.18
ccsA 620542 p.Arg218Trp missense_variant 0.17
ccsA 620862 c.972C>A synonymous_variant 0.12
rpoB 760943 c.1137C>A synonymous_variant 0.12
rpoB 760950 p.Gln382* stop_gained 0.12
rpoC 766361 p.Val998Leu missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779072 p.Glu28Val missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1417445 c.-98A>G upstream_gene_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472971 n.1126G>T non_coding_transcript_exon_variant 0.14
rrs 1473060 n.1215C>T non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474967 n.1310T>C non_coding_transcript_exon_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
rpsA 1834160 c.624delA frameshift_variant 0.11
rpsA 1834526 p.Arg329Gly missense_variant 0.22
rpsA 1834767 p.Lys409Arg missense_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102158 c.885T>G synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.1
PPE35 2169278 c.1335T>C synonymous_variant 0.1
PPE35 2169602 c.1011C>A synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.48
PPE35 2170053 p.Thr187Ser missense_variant 0.42
Rv1979c 2222959 p.Ala69Glu missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289344 c.-103C>A upstream_gene_variant 0.13
kasA 2518314 p.Pro67Gln missense_variant 0.12
fprA 3474403 p.Asn133Asp missense_variant 0.12
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.18
Rv3236c 3612425 p.Ala231Val missense_variant 0.14
rpoA 3878599 c.-92C>G upstream_gene_variant 1.0
rpoA 3878639 c.-132C>G upstream_gene_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.38
embB 4246548 p.Pro12Gln missense_variant 0.43
embB 4246555 c.42G>C synonymous_variant 0.44
embB 4246556 p.Ala15Pro missense_variant 0.44
embB 4246563 p.Leu17Trp missense_variant 0.32
embB 4246567 c.54G>T synonymous_variant 0.35
embB 4249571 p.Ala1020Thr missense_variant 0.11
embB 4249794 p.Ile1094Asn missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0