TB-Profiler result

Run: ERR233361
Summary

Run ID: ERR233361

Sample name:

Date: 13-08-2022 03:08:38

Number of reads: 7161512

Percentage reads mapped: 98.28

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7493 c.192C>T synonymous_variant 0.13
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7799 c.498A>C synonymous_variant 0.14
gyrA 8377 p.Asp359Gly missense_variant 0.16
gyrA 9304 p.Gly668Asp missense_variant 0.96
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.29
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764725 p.Phe452Leu 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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406750 c.591C>A synonymous_variant 0.17
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1417136 p.Ser71Ile missense_variant 0.13
embR 1417233 c.115C>T synonymous_variant 0.16
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 1.0
rrs 1473360 n.1515T>G non_coding_transcript_exon_variant 0.3
rrl 1475332 n.1675G>T non_coding_transcript_exon_variant 0.11
fabG1 1673449 p.Thr4Pro missense_variant 0.24
inhA 1674892 p.Asn231Asp missense_variant 0.2
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.33
ndh 2102540 p.Ala168Gly missense_variant 0.17
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155365 c.747C>G synonymous_variant 0.25
katG 2156141 c.-30C>G upstream_gene_variant 1.0
PPE35 2167871 c.2742G>C synonymous_variant 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169379 p.Phe412Val missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290023 c.-782A>C upstream_gene_variant 0.26
kasA 2518891 c.777C>A synonymous_variant 0.14
eis 2714366 p.Val323Leu missense_variant 0.25
eis 2714846 p.Val163Ile missense_variant 1.0
ahpC 2725954 c.-239C>T upstream_gene_variant 0.16
ahpC 2726550 p.Gln120Lys missense_variant 0.15
folC 2746186 c.1413G>C synonymous_variant 0.17
Rv2752c 3065265 c.927C>G synonymous_variant 0.16
thyX 3067995 c.-50A>C upstream_gene_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339550 p.Gly145Trp missense_variant 0.21
Rv3083 3448929 p.Tyr142* stop_gained 0.18
Rv3083 3449058 p.Ser185Arg missense_variant 0.24
Rv3083 3449673 p.Tyr390* stop_gained 0.16
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474601 p.Arg199Gly missense_variant 0.2
fprA 3475280 p.Val425Gly missense_variant 0.23
fprA 3475308 c.1302C>G synonymous_variant 0.24
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3641411 p.Val290Gly missense_variant 0.19
fbiB 3641955 p.Gly141Arg missense_variant 0.15
rpoA 3878641 c.-135delG upstream_gene_variant 0.22
ddn 3987013 p.Gly57Ala missense_variant 0.14
ddn 3987025 p.Val61Gly missense_variant 0.13
clpC1 4039363 p.Ala448Pro missense_variant 0.14
clpC1 4039932 p.Gly258Val missense_variant 0.26
clpC1 4040738 c.-34G>T upstream_gene_variant 0.22
panD 4043991 c.291G>C synonymous_variant 1.0
embC 4241056 c.1194C>G synonymous_variant 0.14
embC 4241456 p.Ala532Pro missense_variant 0.25
embC 4241783 p.Trp641Gly missense_variant 0.27
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.2
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243977 p.Ala249Pro missense_variant 0.21
embA 4244375 c.1143C>G synonymous_variant 0.19
embA 4246423 p.Val1064Gly missense_variant 0.22
embB 4248115 c.1602C>T synonymous_variant 1.0
embB 4248725 p.Ser738Ala missense_variant 0.2
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.98
gid 4407927 p.Glu92Asp missense_variant 1.0