TB-Profiler result

Run: ERR7801184

Summary

Run ID: ERR7801184

Sample name:

Date: 02-04-2023 05:58:18

Number of reads: 738601

Percentage reads mapped: 99.45

Strain: lineage2.2.1

Drug-resistance: HR-TB


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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
katG 2155959 c.152delA frameshift_variant 0.2 isoniazid
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 490771 c.-12T>C upstream_gene_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575950 c.603C>T synonymous_variant 0.12
mshA 575964 p.Val206Ala missense_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 1.0
ccsA 620752 c.865delG frameshift_variant 0.12
rpoB 761673 p.Gly623Trp missense_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765532 p.Phe721Leu missense_variant 0.11
rpoC 766509 p.Ala1047Val missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303905 c.975G>A synonymous_variant 0.18
fbiC 1304671 p.Val581Ile missense_variant 0.18
fbiC 1304779 p.Leu617Met missense_variant 0.25
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473788 n.131A>G non_coding_transcript_exon_variant 0.14
fabG1 1673270 c.-170G>T upstream_gene_variant 0.12
fabG1 1673903 p.Ala155Asp missense_variant 0.18
inhA 1674386 p.Glu62Ala missense_variant 0.18
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102116 c.927G>A synonymous_variant 0.12
ndh 2103193 c.-151G>T upstream_gene_variant 0.19
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154930 c.1182G>A synonymous_variant 0.17
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169992 c.621C>T synonymous_variant 0.14
Rv1979c 2223109 p.Val19Asp missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746904 p.Ala232Val missense_variant 0.14
folC 2747337 p.Ala88Ser missense_variant 0.12
folC 2747770 c.-172T>G upstream_gene_variant 0.22
ribD 2987472 p.Cys212Ser missense_variant 0.17
thyX 3067391 c.555G>T synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612151 c.966G>T synonymous_variant 0.11
Rv3236c 3612266 p.Pro284Gln missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3613052 p.Gly22Asp missense_variant 0.11
Rv3236c 3613195 c.-79G>T upstream_gene_variant 0.11
fbiB 3641091 c.-444C>T upstream_gene_variant 0.15
alr 3840453 p.Gly323Val missense_variant 0.11
rpoA 3878124 c.384G>T synonymous_variant 0.12
panD 4044153 p.Gln43His missense_variant 0.15
embC 4240951 c.1089C>A synonymous_variant 0.12
embC 4241600 p.Met580Leu missense_variant 0.18
embC 4241975 p.Gln705Lys missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245188 c.1956G>A synonymous_variant 0.14
embA 4245625 p.Ser798* stop_gained 0.12
embB 4248928 c.2415A>G synonymous_variant 0.11
embB 4249766 p.Arg1085Ser missense_variant 0.33
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4326676 p.Ser266Arg missense_variant 1.0
ethR 4326994 c.-555C>T upstream_gene_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407875 p.Val110Met missense_variant 0.12
gid 4407927 p.Glu92Asp missense_variant 1.0