TB-Profiler result

Run: ERR2515309

Summary

Run ID: ERR2515309

Sample name:

Date: 31-03-2023 20:51:58

Number of reads: 510000

Percentage reads mapped: 99.63

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 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
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
gyrA 6319 c.-983G>A upstream_gene_variant 0.11
gyrA 7354 p.Val18Asp missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.94
fgd1 490603 c.-180G>T upstream_gene_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575323 c.-25G>C upstream_gene_variant 0.15
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620083 p.Ala65Ser missense_variant 0.17
ccsA 620182 p.Arg98Cys missense_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
ccsA 620853 c.963G>C synonymous_variant 0.14
rpoB 760411 p.Arg202His missense_variant 0.18
rpoB 760944 p.Gln380Lys missense_variant 0.15
rpoB 760963 p.Gly386Val missense_variant 0.15
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764051 p.Lys228* stop_gained 0.13
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 777814 p.Tyr223His missense_variant 0.13
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303267 p.Lys113Glu missense_variant 0.15
fbiC 1303275 c.345C>A synonymous_variant 0.17
Rv1258c 1406399 c.942C>A synonymous_variant 0.11
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1417350 c.-3G>A upstream_gene_variant 0.11
atpE 1460920 c.-125T>C upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473777 n.120T>C non_coding_transcript_exon_variant 0.14
rrl 1474036 n.379G>A non_coding_transcript_exon_variant 0.14
rrl 1474141 n.484G>T non_coding_transcript_exon_variant 0.13
rrl 1474217 n.560A>G non_coding_transcript_exon_variant 0.12
rrl 1475435 n.1778G>T non_coding_transcript_exon_variant 0.13
inhA 1674162 c.-40C>T upstream_gene_variant 0.17
inhA 1674225 c.24A>G synonymous_variant 0.13
inhA 1674879 c.678T>G synonymous_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834759 c.1218A>G synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918151 p.Val71Ala missense_variant 0.14
ndh 2102617 c.426C>T synonymous_variant 0.12
ndh 2103226 c.-184C>G upstream_gene_variant 1.0
katG 2154394 p.Asp573Gly missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168423 c.2190G>T synonymous_variant 0.18
PPE35 2169930 p.Gly228Asp missense_variant 0.12
PPE35 2170114 p.Ala167Ser missense_variant 0.15
PPE35 2170321 p.Glu98Lys missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747184 p.Gln139Lys missense_variant 0.22
pepQ 2859703 p.Leu239Ser missense_variant 0.14
ribD 2987442 p.Phe202Leu missense_variant 0.14
Rv2752c 3064591 p.Arg534His missense_variant 0.13
ald 3086739 c.-81G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087501 p.Ala228Pro missense_variant 0.11
fbiD 3339012 c.-106A>G upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640733 p.Thr64Ile missense_variant 0.14
fbiB 3642444 p.Ala304Thr missense_variant 0.18
alr 3840209 c.1211delA frameshift_variant 0.17
rpoA 3878462 p.Asp16Asn missense_variant 0.29
ddn 3986838 c.-6A>G upstream_gene_variant 0.11
ddn 3987111 c.269delT frameshift_variant 0.18
clpC1 4039862 p.Asp281Glu missense_variant 0.11
clpC1 4040206 p.Thr167Ala missense_variant 0.13
panD 4044252 c.30C>T synonymous_variant 0.12
embC 4241553 p.Pro564Leu missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4248151 c.1638C>G synonymous_variant 0.13
embB 4248897 p.Glu795Gly missense_variant 0.2
aftB 4267458 p.Trp460Leu missense_variant 0.29
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268694 p.Val48Ala missense_variant 0.25
ubiA 4269538 p.Glu99Ala missense_variant 0.2
ethA 4326857 p.Gln206Arg missense_variant 0.1
ethR 4327625 p.Glu26Gly missense_variant 0.11
ethR 4327661 p.Glu38Gly missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407882 c.321T>C synonymous_variant 0.14
gid 4407927 p.Glu92Asp missense_variant 1.0