TB-Profiler result

Run: ERR4828420
Summary

Run ID: ERR4828420

Sample name:

Date: 01-04-2023 18:52:31

Number of reads: 1081683

Percentage reads mapped: 99.25

Strain: lineage2.2.1

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
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 5653 c.414G>A synonymous_variant 0.12
gyrB 5812 c.573C>T synonymous_variant 0.11
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 575907 p.Ala187Val missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.33
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761306 c.1500C>T synonymous_variant 0.12
rpoB 761329 p.Thr508Lys missense_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763198 p.Val1131Ala missense_variant 0.13
rpoC 764297 p.Met310Leu missense_variant 0.13
rpoC 766456 c.3087C>A synonymous_variant 0.15
rpoC 766476 p.Glu1036Gly missense_variant 0.14
rpoC 767222 p.Ile1285Phe missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303395 p.Trp155* stop_gained 0.15
fbiC 1305211 p.Pro761Thr missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1417477 c.-130C>A upstream_gene_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472556 n.711C>A non_coding_transcript_exon_variant 0.5
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.15
rrl 1474951 n.1294C>A non_coding_transcript_exon_variant 0.25
rrl 1475024 n.1367G>T non_coding_transcript_exon_variant 0.33
inhA 1674210 c.9A>C synonymous_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168493 p.Gly707Asp missense_variant 1.0
Rv1979c 2222713 p.Ile151Ser missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518131 p.Thr6Ile missense_variant 0.12
eis 2714976 p.His119Gln missense_variant 0.12
Rv2752c 3067028 c.-837A>C upstream_gene_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.23
Rv3083 3449212 p.Arg237Cys missense_variant 0.13
Rv3083 3449356 p.Asn285Asp missense_variant 0.13
Rv3083 3449579 p.Ile359Asn missense_variant 0.15
Rv3083 3449626 p.Gly375Cys missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641625 p.Ala31Thr missense_variant 1.0
alr 3840595 p.Thr276Pro missense_variant 0.12
ddn 3987246 p.Asp135Asn missense_variant 0.11
clpC1 4039621 p.Leu362Met missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4246293 p.Trp1021Arg missense_variant 0.11
embA 4246305 p.Ser1025Thr missense_variant 0.12
embB 4246536 p.Arg8Pro missense_variant 0.4
embB 4246674 p.Ala54Val missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267779 p.Ile353Asn missense_variant 0.12
aftB 4268154 p.Arg228Gln missense_variant 0.12
ethA 4326103 c.1371G>T synonymous_variant 0.12
ethA 4327403 p.Gln24Pro missense_variant 0.14
ethA 4328221 c.-748A>C upstream_gene_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4408064 p.Arg47Gly missense_variant 0.13
gid 4408198 p.Ser2Tyr missense_variant 0.12