TB-Profiler result

Run: ERR4818614
Summary

Run ID: ERR4818614

Sample name:

Date: 01-04-2023 15:39:22

Number of reads: 386672

Percentage reads mapped: 99.38

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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
ethA 4327340 c.133delT frameshift_variant 0.18 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
gyrB 6228 p.Lys330Arg missense_variant 0.18
gyrB 6233 p.Ala332Pro missense_variant 0.18
gyrB 7055 p.Gly606Ser missense_variant 0.33
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 491742 c.960T>C synonymous_variant 1.0
mshA 576444 p.Gly366Asp missense_variant 0.15
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 762218 c.2412T>C synonymous_variant 0.14
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776086 p.Val799Ile missense_variant 0.29
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777474 p.Gly336Asp missense_variant 0.29
mmpL5 778437 p.Pro15His missense_variant 0.15
rpsL 781361 c.-199G>T upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304166 c.1236A>T synonymous_variant 0.11
Rv1258c 1406128 c.1213C>T synonymous_variant 0.2
embR 1416290 p.Gln353Arg missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674265 p.Ala22Thr missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102808 p.Gln79* stop_gained 0.15
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170212 p.Ala134Val missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2714278 p.Asp352Gly missense_variant 0.18
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747174 p.Ala142Val missense_variant 0.17
pepQ 2860105 p.Asp105Gly missense_variant 0.13
thyA 3074097 c.375C>T synonymous_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642014 c.480G>A synonymous_variant 0.17
fbiB 3642731 c.1197C>A synonymous_variant 0.25
alr 3841473 c.-53G>A upstream_gene_variant 1.0
ddn 3987214 p.Pro124Gln missense_variant 0.29
clpC1 4038476 c.2227_2228delAA frameshift_variant 0.18
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247015 p.Ser168Pro missense_variant 0.12
embB 4248287 c.1777delG frameshift_variant 0.67
aftB 4268077 p.Met254Val missense_variant 0.12
aftB 4268873 c.-37C>G upstream_gene_variant 0.17
ubiA 4268983 p.Leu284Ser missense_variant 0.22
ethA 4326406 c.1068C>T synonymous_variant 1.0
ethA 4326579 p.Gly299Ser missense_variant 0.4
ethA 4327139 p.Ala112Gly missense_variant 1.0
ethR 4327884 p.Glu112Asp missense_variant 0.2
ethA 4328287 c.-815delC upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0