TB-Profiler result

Run: ERR4814315

Summary

Run ID: ERR4814315

Sample name:

Date: 01-04-2023 13:13:29

Number of reads: 696354

Percentage reads mapped: 99.43

Strain: lineage3

Drug-resistance: Sensitive


Download CSV Download TXT Download PDF Download JSON
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491494 p.Asp238Tyr missense_variant 0.15
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575483 p.Arg46Trp missense_variant 0.11
mshA 576781 c.1434G>T synonymous_variant 0.12
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761785 p.Thr660Asn missense_variant 0.12
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766746 c.3382delC frameshift_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776540 p.Ser647Arg missense_variant 0.12
mmpL5 777092 c.1389G>A synonymous_variant 0.12
mmpL5 778932 c.-452A>G upstream_gene_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304509 p.Ala527Ser missense_variant 0.11
embR 1416766 c.582C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475084 n.1427G>A non_coding_transcript_exon_variant 0.67
rpsA 1834842 p.Lys434Arg missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154259 p.Thr618Met missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168059 p.Gln852* stop_gained 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289345 c.-104G>T upstream_gene_variant 0.13
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2714624 p.Arg237Cys missense_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746941 p.Ile220Val missense_variant 0.15
pepQ 2859702 p.Leu239Phe missense_variant 0.12
pepQ 2860176 c.243C>A synonymous_variant 0.18
pepQ 2860289 c.130C>T synonymous_variant 0.17
thyA 3073813 p.Leu220Pro missense_variant 0.1
thyA 3074474 c.-3A>G upstream_gene_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449804 p.Gly434Asp missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4039217 c.1488G>T synonymous_variant 0.12
clpC1 4040485 p.Pro74Thr missense_variant 0.14
clpC1 4040805 c.-101C>A upstream_gene_variant 0.11
panD 4044005 p.Met93Val missense_variant 0.12
panD 4044335 c.-54C>T upstream_gene_variant 0.17
embC 4240683 p.Asp274Gly missense_variant 0.12
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246847 p.Gln112* stop_gained 0.14
embB 4249010 p.Leu833Met missense_variant 0.11
ubiA 4269406 p.Lys143Met missense_variant 0.17
ethR 4326745 c.-804C>T upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407613 p.Arg197Leu missense_variant 0.11