TB-Profiler result

Run: ERR2245361
Summary

Run ID: ERR2245361

Sample name:

Date: 31-03-2023 17:39:21

Number of reads: 1909906

Percentage reads mapped: 98.72

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 0.94
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 6097 p.Glu286Asp missense_variant 0.29
gyrB 7259 p.Asp674Tyr missense_variant 0.5
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9445 p.Asn715Ile missense_variant 0.5
fgd1 490891 p.Val37Phe missense_variant 0.4
mshA 575250 c.-98G>T upstream_gene_variant 0.5
mshA 576108 p.Ala254Gly missense_variant 0.4
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 759802 c.-5G>T upstream_gene_variant 0.25
rpoB 760901 p.Asp365Glu missense_variant 0.33
rpoB 761981 p.Tyr725* stop_gained 0.25
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 764532 p.Gly388Val missense_variant 0.67
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776281 p.Arg734Ser missense_variant 0.29
mmpL5 776362 c.2118delA frameshift_variant 0.4
mmpL5 776959 p.Gln508* stop_gained 0.29
mmpS5 778895 p.Thr4Asn missense_variant 0.5
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800983 p.Pro59Ser missense_variant 0.67
rplC 801083 p.Ala92Val missense_variant 0.67
fbiC 1303036 p.Gly36Cys missense_variant 0.67
fbiC 1304858 p.Thr643Ile missense_variant 1.0
embR 1416623 p.Asp242Ala missense_variant 0.33
embR 1416861 p.Ala163Ser missense_variant 0.5
atpE 1461145 p.Ala34Glu missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471740 n.-106A>T upstream_gene_variant 0.36
fabG1 1673380 c.-60C>G upstream_gene_variant 0.4
rpsA 1834434 p.Pro298Gln missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103070 c.-28G>A upstream_gene_variant 0.33
katG 2154671 p.Ser481Ala missense_variant 0.4
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156469 c.-358G>A upstream_gene_variant 0.67
Rv1979c 2222244 c.881_920delCCATCGGAAACGCTACCTTCCGAACGATCATCGTCGTCGG frameshift_variant 0.33
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
eis 2714274 c.1059G>T synonymous_variant 0.5
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726186 c.-7G>T upstream_gene_variant 0.29
folC 2746655 p.Ala315Val missense_variant 1.0
pepQ 2860135 p.Leu95Gln missense_variant 0.67
ribD 2987291 p.Asp151Glu missense_variant 1.0
ribD 2987614 c.776G>T stop_lost&splice_region_variant 0.5
Rv2752c 3066139 p.Val18Gly missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087000 p.Ala61Ser missense_variant 0.29
ald 3087684 p.Ala289Ser missense_variant 0.5
Rv3083 3448870 p.Glu123* stop_gained 0.33
Rv3083 3448889 p.Arg129Leu missense_variant 0.4
Rv3083 3449147 p.Ser215* stop_gained 1.0
Rv3083 3449340 c.837C>A synonymous_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641611 p.Gly26Val missense_variant 1.0
alr 3840307 p.Gly372Cys missense_variant 0.5
alr 3840546 p.Gly292Val missense_variant 0.4
ddn 3986744 c.-100C>A upstream_gene_variant 1.0
clpC1 4038415 p.Phe764Val missense_variant 0.5
clpC1 4040244 p.Gly154Val missense_variant 0.5
panD 4044438 c.-157G>C upstream_gene_variant 0.29
embC 4239711 c.-152C>A upstream_gene_variant 0.5
embC 4240172 p.Val104Met missense_variant 1.0
embC 4241261 p.Phe467Leu missense_variant 1.0
embC 4241276 p.Leu472Met missense_variant 1.0
embC 4241562 p.Arg567His missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243454 c.222C>A synonymous_variant 1.0
embA 4244817 p.Phe529Val missense_variant 1.0
embA 4245981 p.Gly917* stop_gained 1.0
embB 4246711 c.198C>T synonymous_variant 0.67
embB 4248436 c.1923C>T synonymous_variant 0.67
embB 4248648 p.Gly712Asp missense_variant 0.5
embB 4248720 p.Gly736Val missense_variant 0.5
ethA 4326111 p.Trp455Arg missense_variant 0.67
ethA 4326666 p.Arg270Ser missense_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407703 p.Ala167Asp missense_variant 1.0