Hotspot

ycf1

SSC · 114871-120495 · 5625 bp

Back to Corchorus

Pi 0.0703

MarkerSeek score 72.30

Primer available yes

Label ycf1

Feature Metadata

label_name: ycf1
feature_type: gene
region: SSC
length_bp: 5625
variable_sites: 380
pi: 0.0703
unique_haplotype_count: 2
primer_available: yes
alignment_reliability: 0.96
markerseek_score: 72.30

Pi Curve

Haplotype Network

Species Separation

Primer Ranking

Primer ID	fwd_seq	rev_seq	fwd_gc	rev_gc	fwd_tm	rev_tm	amplicon_size	cross_species_success_rate	primer_score
ycf1_p1	CATGATGCAGACAACGAGGA	GTTTCCCTTCCCCAAACTGT	50.0	50.0	58.0	57.9	986 bp	0.5	59.2
ycf1_p2	AGAGCAGAGCCTCAAATTCG	GTTTCCCTTCCCCAAACTGT	50.0	50.0	58.0	57.9	959 bp	0.5	59.2
ycf1_p3	CATGATGCAGACAACGAGGA	TACCGTCCGTTAACCAGTCT	50.0	50.0	58.0	58.1	829 bp	0.5	59.2
ycf1_p4	AGAGCAGAGCCTCAAATTCG	TACCGTCCGTTAACCAGTCT	50.0	50.0	58.0	58.1	802 bp	0.5	59.1
ycf1_p5	TAGAACGCCATGATGCAGAC	GTTTCCCTTCCCCAAACTGT	50.0	50.0	58.1	57.9	994 bp	0.5	58.9