TB-Profiler result

Run: ERR2229549
Summary

Run ID: ERR2229549

Sample name:

Date: 31-03-2023 17:18:22

Number of reads: 1097006

Percentage reads mapped: 99.4

Strain: lineage4.8

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
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
gyrA 7362 p.Glu21Gln missense_variant 0.97
mshA 575407 c.60C>A synonymous_variant 0.12
mshA 576483 p.Val379Gly missense_variant 0.2
rpoC 765515 p.Leu716Ile missense_variant 0.13
rpoC 765552 p.Gly728Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778878 p.Ile10Val missense_variant 0.19
mmpL5 779376 c.-896C>G upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801014 p.Gln69Arg missense_variant 0.12
fbiC 1303454 p.Arg175Leu missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1416987 p.Ala121Ser missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474607 n.950A>T non_coding_transcript_exon_variant 0.12
rrl 1475040 n.1383G>C non_coding_transcript_exon_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.25
rpsA 1834201 c.660C>G synonymous_variant 0.11
rpsA 1834476 p.Arg312His missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918646 p.Asn236Ser missense_variant 0.12
ndh 2102502 p.Thr181Ala missense_variant 0.13
katG 2153918 p.Met732Val missense_variant 0.11
PPE35 2167745 c.2868C>G synonymous_variant 0.12
PPE35 2167814 c.2799C>T synonymous_variant 0.31
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.32
PPE35 2170053 p.Thr187Ser missense_variant 0.38
PPE35 2170155 c.457delG frameshift_variant 0.12
Rv1979c 2222723 p.Leu148Met missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715114 c.219T>C synonymous_variant 0.11
pepQ 2859626 p.Leu265Met missense_variant 0.13
Rv2752c 3064991 p.Arg401Trp missense_variant 0.18
Rv2752c 3065635 p.Pro186Gln missense_variant 0.12
thyX 3067273 p.Ala225Thr missense_variant 0.2
thyA 3074346 c.126C>T synonymous_variant 0.12
fbiD 3339736 p.Thr207Pro missense_variant 0.25
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3474035 p.Gly10Ala missense_variant 0.11
fprA 3474145 p.Gly47Trp missense_variant 0.18
fprA 3474907 p.Arg301* stop_gained 0.13
whiB7 3568444 p.His79Arg missense_variant 0.13
fbiA 3641370 p.Tyr276* stop_gained 0.2
fbiB 3642020 c.486T>C synonymous_variant 0.17
fbiB 3642878 p.Lys448Asn missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.28
clpC1 4038198 p.Gly836Glu missense_variant 0.14
embC 4241553 p.Pro564Leu missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246109 c.-405C>T upstream_gene_variant 0.22
embB 4246307 c.-207G>T upstream_gene_variant 0.25
embB 4246555 c.42G>C synonymous_variant 1.0
embB 4246556 p.Ala15Pro missense_variant 1.0
embB 4246563 p.Leu17Trp missense_variant 0.6
embB 4246567 c.54_55insT frameshift_variant 0.33
aftB 4268632 p.Val69Met missense_variant 0.18
aftB 4268868 c.-32G>T upstream_gene_variant 0.17
aftB 4268890 c.-54C>A upstream_gene_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0