TB-Profiler result

Run: ERR4816927
Summary

Run ID: ERR4816927

Sample name:

Date: 01-04-2023 14:42:32

Number of reads: 452053

Percentage reads mapped: 99.45

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 7968 p.Val223Ile missense_variant 1.0
gyrA 8530 p.Ala410Val missense_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619721 c.-170A>G upstream_gene_variant 0.4
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776657 p.Asp608Glu missense_variant 0.12
mmpS5 779568 c.-663C>A upstream_gene_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305040 p.Ser704Ala missense_variant 0.12
Rv1258c 1406355 p.Gln329Pro missense_variant 0.12
Rv1258c 1406842 p.Thr167Ala missense_variant 0.14
embR 1416522 p.Val276Met missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472236 n.391C>T non_coding_transcript_exon_variant 0.17
rrl 1475335 n.1678G>T non_coding_transcript_exon_variant 0.12
fabG1 1673902 p.Ala155Thr missense_variant 0.11
rpsA 1834873 c.1332C>T synonymous_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102296 c.747C>T synonymous_variant 0.15
ndh 2103068 c.-26G>A upstream_gene_variant 0.1
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155554 c.558C>A synonymous_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.11
PPE35 2169272 c.1341C>G synonymous_variant 0.11
PPE35 2169528 p.Leu362Pro missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518850 p.Met246Leu missense_variant 0.11
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449519 p.Ala339Asp missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474248 p.Asn81Ser missense_variant 0.11
fprA 3474746 p.Gln247Arg missense_variant 0.12
Rv3236c 3612425 p.Ala231Val missense_variant 0.12
alr 3841473 c.-53G>A upstream_gene_variant 1.0
ddn 3987182 c.339C>T synonymous_variant 0.29
clpC1 4038465 p.Met747Thr missense_variant 0.12
clpC1 4039240 p.Gly489Ser missense_variant 0.17
clpC1 4040144 c.561G>C synonymous_variant 0.11
clpC1 4040898 c.-194C>T upstream_gene_variant 0.14
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244164 c.933_953delTGCCCAGCTGGCGGCGGTGAG disruptive_inframe_deletion 0.29
embB 4246647 p.Pro45Leu missense_variant 1.0
embB 4249072 c.2559G>A synonymous_variant 0.12
aftB 4268745 p.Gly31Val missense_variant 0.17
ethR 4327057 c.-492G>A upstream_gene_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0