TB-Profiler result

Run: ERR4817338
Summary

Run ID: ERR4817338

Sample name:

Date: 01-04-2023 14:56:06

Number of reads: 348712

Percentage reads mapped: 99.43

Strain: lineage2

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
lineage2 East-Asian Beijing RD105 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 5753 p.Arg172Trp 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
gyrA 9773 c.2472C>T synonymous_variant 0.2
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 575973 p.Glu209Ala missense_variant 0.25
mshA 576415 c.1068C>T synonymous_variant 0.33
ccsA 620625 p.Ile245Met missense_variant 1.0
ccsA 620750 p.Trp287Ser missense_variant 0.22
ccsA 620786 p.Gly299Asp missense_variant 0.25
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763437 p.Trp23Ser missense_variant 0.2
rpoC 764829 p.Leu487His missense_variant 0.18
rpoC 764848 c.1479G>A synonymous_variant 0.2
rpoC 765494 p.Val709Ile missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777018 p.Asp488Ala missense_variant 0.25
mmpL5 777021 p.Pro487Gln missense_variant 0.29
mmpL5 777455 c.1026G>T synonymous_variant 0.2
mmpR5 778198 c.-792G>A upstream_gene_variant 0.33
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801170 p.Lys121Arg missense_variant 0.4
fbiC 1304332 p.Ser468Gly missense_variant 0.29
fbiC 1304381 p.Ala484Val missense_variant 0.14
fbiC 1304802 c.1872G>T synonymous_variant 0.2
Rv1258c 1406093 c.1248A>T synonymous_variant 0.2
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
atpE 1461225 p.Glu61Gln missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673157 c.-283G>T upstream_gene_variant 0.29
inhA 1674881 p.Pro227Leu missense_variant 0.25
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834350 p.Glu270Gly missense_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918673 p.Thr245Lys missense_variant 0.18
tlyA 1918679 p.Thr247Asn missense_variant 0.2
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155043 p.Asp357Tyr missense_variant 0.25
katG 2155757 p.Arg119Cys missense_variant 0.22
PPE35 2167696 p.Ile973Leu missense_variant 0.29
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168366 p.Leu749Phe missense_variant 0.15
PPE35 2168655 p.Asn653Thr missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289609 c.-368A>G upstream_gene_variant 0.25
pepQ 2860250 p.Asp57Asn missense_variant 0.33
Rv2752c 3065306 p.Ala296Thr missense_variant 0.25
thyX 3067461 p.Leu162Pro missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086797 c.-23G>A upstream_gene_variant 1.0
ald 3086840 c.21C>G synonymous_variant 0.14
fbiD 3338956 c.-162G>T upstream_gene_variant 0.25
fbiD 3339075 c.-43C>T upstream_gene_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474376 p.Ala124Ser missense_variant 0.33
fprA 3474882 p.Asn292Lys missense_variant 0.29
whiB7 3568495 p.Pro62His missense_variant 0.22
Rv3236c 3612473 p.Ser215Tyr missense_variant 0.4
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3612915 p.Leu68Met missense_variant 0.17
fbiA 3640823 p.Arg94His missense_variant 0.29
fbiA 3641090 p.His183Pro missense_variant 0.22
alr 3840533 c.888G>A synonymous_variant 0.4
ddn 3986794 c.-50G>T upstream_gene_variant 0.18
clpC1 4038773 p.Asp644Glu missense_variant 0.25
clpC1 4038776 p.Glu643Asp missense_variant 0.22
clpC1 4039989 p.Pro239Leu missense_variant 0.18
clpC1 4040144 c.561G>C synonymous_variant 0.27
clpC1 4040191 p.Asp172Tyr missense_variant 0.33
clpC1 4040778 c.-74G>A upstream_gene_variant 0.17
embC 4241637 p.Val592Ala missense_variant 1.0
embC 4242635 p.Ala925Thr missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242904 p.Asp1014Glu missense_variant 0.15
embA 4242970 c.-263C>T upstream_gene_variant 0.2
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243793 c.561C>T synonymous_variant 0.4
embA 4244889 p.Ile553Leu missense_variant 1.0
embA 4245405 p.Ala725Thr missense_variant 0.29
embB 4246361 c.-153C>G upstream_gene_variant 0.2
embB 4248962 p.Ala817Ser missense_variant 0.22
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267824 p.Val338Ala missense_variant 0.33
ubiA 4269784 c.49delG frameshift_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338605 c.-84C>G upstream_gene_variant 0.25
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0