TB-Profiler result

Run: ERR4828489
Summary

Run ID: ERR4828489

Sample name:

Date: 01-04-2023 18:54:54

Number of reads: 975188

Percentage reads mapped: 99.42

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 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 5794 c.555C>T synonymous_variant 0.17
gyrB 6428 p.Glu397* stop_gained 0.2
gyrB 6599 p.Glu454Lys missense_variant 0.18
gyrA 6724 c.-578G>A upstream_gene_variant 0.15
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
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760391 p.Ser195Arg missense_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763432 c.63G>A synonymous_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 777996 p.Ala162Val missense_variant 0.17
mmpL5 778051 p.Gly144Ser missense_variant 0.17
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
atpE 1461228 p.Ala62Ser missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472874 n.1029C>A non_coding_transcript_exon_variant 0.4
rrl 1473959 n.302T>C non_coding_transcript_exon_variant 0.67
rrl 1476785 n.3128A>G non_coding_transcript_exon_variant 0.13
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
katG 2156530 c.-419G>A upstream_gene_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169059 c.1554G>A synonymous_variant 0.2
PPE35 2169592 p.Ile341Leu missense_variant 0.18
PPE35 2169593 c.1020C>G synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726084 c.-109C>T upstream_gene_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448986 c.483C>T synonymous_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474448 p.Ala148Thr missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3878630 c.-123G>C upstream_gene_variant 0.12
clpC1 4040605 p.Leu34Val missense_variant 0.2
panD 4044017 p.Ala89Thr missense_variant 0.2
embC 4241940 p.Pro693Gln missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4326483 p.Arg331Cys missense_variant 0.13
ethA 4326535 c.939G>C synonymous_variant 0.2
ethA 4327179 p.Arg99Trp missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338635 c.-114A>T upstream_gene_variant 0.14
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0