TB-Profiler result

Run: ERR4818009
Summary

Run ID: ERR4818009

Sample name:

Date: 01-04-2023 15:19:01

Number of reads: 649392

Percentage reads mapped: 78.52

Strain: lineage2.2.1.1

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 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 1.0
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 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 5867 p.Asp210His missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8826 p.Asp509Asn missense_variant 0.11
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 575963 p.Val206Phe missense_variant 0.11
ccsA 620321 p.Pro144Gln missense_variant 0.11
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 762926 c.-444C>G upstream_gene_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.12
rpoC 764410 c.1041G>C synonymous_variant 0.11
rpoC 764428 c.1059G>C synonymous_variant 0.14
rpoC 764434 c.1065A>G synonymous_variant 0.14
rpoC 764435 c.1066A>C synonymous_variant 0.15
rpoC 764446 p.Asp359Glu missense_variant 0.11
rpoC 764450 p.Gly361Arg missense_variant 0.11
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 1303016 p.Val29Gly missense_variant 0.11
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.23
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.33
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.27
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.27
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.27
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.2
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.2
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.22
rrs 1472266 n.421C>A non_coding_transcript_exon_variant 0.22
rrs 1472912 n.1067C>A non_coding_transcript_exon_variant 0.25
rrl 1473763 n.106C>T non_coding_transcript_exon_variant 0.25
rrl 1476336 n.2679C>G non_coding_transcript_exon_variant 0.14
rrl 1476356 n.2699C>G non_coding_transcript_exon_variant 0.27
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.25
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.25
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.31
rrl 1476384 n.2727G>C non_coding_transcript_exon_variant 0.31
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.33
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.33
rrl 1476428 n.2771C>A non_coding_transcript_exon_variant 0.33
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.33
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.36
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.36
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.33
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.33
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.25
rpsA 1834051 p.Glu170Asp missense_variant 0.1
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
Rv1979c 2223014 p.Tyr51Asn missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289199 p.Glu15Lys missense_variant 0.12
pncA 2290011 c.-770C>T upstream_gene_variant 0.18
kasA 2519200 c.1086G>A synonymous_variant 0.15
kasA 2519207 p.Gly365Ser missense_variant 0.15
eis 2714846 p.Val163Ile missense_variant 1.0
eis 2715151 c.181delA frameshift_variant 0.11
folC 2746526 p.Gly358Val missense_variant 0.12
Rv2752c 3065584 p.Ser203Trp missense_variant 0.13
thyA 3074513 c.-42C>T upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448709 p.Trp69Leu missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474654 c.648C>T synonymous_variant 0.14
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3642085 p.Gly184Asp missense_variant 0.12
ddn 3986810 c.-34C>T upstream_gene_variant 0.14
embC 4241949 p.Phe696Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244213 c.981C>T synonymous_variant 0.11
embB 4248115 c.1602C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267795 p.Ala348Ser missense_variant 0.12
ubiA 4269470 p.Pro122Ala missense_variant 0.14
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