TB-Profiler result

Run: ERR495003
Summary

Run ID: ERR495003

Sample name:

Date: 01-04-2023 21:34:26

Number of reads: 716931

Percentage reads mapped: 99.45

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 0.97
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.98
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
gyrB 6326 p.Ser363Gly missense_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 576425 p.Val360Met missense_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763102 p.Ala1099Glu missense_variant 0.14
rpoC 764715 p.Leu449Pro missense_variant 0.29
rpoC 765331 p.Ser654Arg missense_variant 0.12
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 778214 p.Ser89Arg missense_variant 0.13
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406615 p.Met242Ile missense_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416659 p.Arg230Gln missense_variant 0.17
atpE 1460871 c.-173delG upstream_gene_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.67
rrl 1475821 n.2164T>A non_coding_transcript_exon_variant 0.17
inhA 1674952 p.Pro251Ala missense_variant 0.22
rpsA 1833422 c.-120G>A upstream_gene_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102500 c.543C>T synonymous_variant 0.25
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 0.95
PPE35 2168485 p.Asn710Tyr missense_variant 0.14
PPE35 2169581 c.1032C>G synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288987 c.255G>T synonymous_variant 0.14
pncA 2288999 c.243C>T synonymous_variant 0.13
pncA 2289863 c.-622G>T upstream_gene_variant 0.13
eis 2715352 c.-20A>T upstream_gene_variant 0.25
pepQ 2859573 c.846C>A synonymous_variant 0.15
ribD 2987173 p.Ser112Ile missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339221 p.Arg35His missense_variant 0.13
fbiD 3339399 c.282C>T synonymous_variant 0.13
Rv3083 3449567 p.Gly355Ala missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3641080 p.Val180Met missense_variant 0.33
fbiB 3641588 c.54C>T synonymous_variant 0.14
embC 4242425 p.Arg855Gly missense_variant 0.43
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243418 c.186G>T synonymous_variant 0.18
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246567 c.54G>T synonymous_variant 1.0
embB 4248879 p.Thr789Lys missense_variant 0.15
aftB 4267642 p.Ala399Ser missense_variant 0.22
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269410 p.Leu142Phe missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407788 p.Val139Leu missense_variant 0.11
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4408306 c.-104C>T upstream_gene_variant 0.15