TB-Profiler result

Run: ERR2229401

Summary

Run ID: ERR2229401

Sample name:

Date: 31-03-2023 17:09:20

Number of reads: 1021379

Percentage reads mapped: 99.0

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
gyrB 6930 p.Ala564Val missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8026 p.Asp242Val missense_variant 0.13
mshA 576225 p.Val293Glu missense_variant 0.17
mshA 576486 p.Ala380Glu missense_variant 0.12
rpoC 766539 p.Asp1057Gly missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776008 p.His825Asp missense_variant 0.12
mmpL5 776009 c.2472A>G synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.3
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169013 p.Val534Leu missense_variant 0.21
PPE35 2169029 c.1584T>C synonymous_variant 0.18
PPE35 2169269 c.1344A>G synonymous_variant 0.15
PPE35 2169272 c.1341C>G synonymous_variant 0.15
PPE35 2169278 c.1335T>C synonymous_variant 0.32
PPE35 2169281 c.1332T>G synonymous_variant 0.38
PPE35 2169287 c.1326T>C synonymous_variant 0.17
PPE35 2169902 c.711G>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.62
PPE35 2170053 p.Thr187Ser missense_variant 0.61
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289711 c.-470T>C upstream_gene_variant 0.25
pncA 2290202 c.-961C>A upstream_gene_variant 0.33
pncA 2290220 c.-979G>T upstream_gene_variant 0.29
kasA 2519140 c.1026G>C synonymous_variant 0.18
kasA 2519143 c.1029G>C synonymous_variant 0.18
kasA 2519153 p.Ile347Val missense_variant 0.17
pepQ 2859792 c.627C>T synonymous_variant 0.12
thyX 3067528 p.Arg140Ser missense_variant 0.67
thyA 3074310 c.162G>T synonymous_variant 0.17
ald 3087917 c.1098C>G synonymous_variant 0.13
fbiD 3339266 p.Ala50Glu missense_variant 0.12
fbiD 3339364 p.Pro83Ala missense_variant 0.19
Rv3236c 3613186 c.-70G>T upstream_gene_variant 0.17
fbiB 3642024 p.Ala164Ser missense_variant 0.18
fbiB 3642047 c.513G>C synonymous_variant 0.2
alr 3841546 c.-126C>A upstream_gene_variant 0.17
rpoA 3877683 c.825G>T synonymous_variant 0.12
clpC1 4040144 c.561G>C synonymous_variant 0.14
clpC1 4040346 p.Ala120Gly missense_variant 0.12
panD 4044223 p.Leu20Gln missense_variant 0.12
embC 4239950 p.Arg30Trp missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.38
embB 4246548 p.Pro12Gln missense_variant 0.56
embB 4246555 c.42G>C synonymous_variant 0.62
embB 4246556 p.Ala15Pro missense_variant 0.62
embB 4246567 c.54G>T synonymous_variant 0.4
embB 4246584 p.Arg24Pro missense_variant 0.22
ethR 4327885 p.Thr113Ser missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0