Hotspot

ycf1

SSC · 122388-127793 · 5406 bp

Back to Amaranthus

Pi 0.00803

MarkerSeek score 38.00

Primer available yes

Label ycf1

Feature Metadata

label_name: ycf1
feature_type: gene
region: SSC
length_bp: 5406
variable_sites: 226
pi: 0.00803
unique_haplotype_count: 14
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 38.00

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	TTACGTCTTTGAGCACGCAT	AAGTTCCTCGTTGGTCACAC	45.0	50.0	58.2	58.1	235-259 bp	1.0	89.9
ycf1_p2	TCAGATTGTTGGGCATACCG	AAGTTCCTCGTTGGTCACAC	50.0	50.0	58.0	58.1	211 bp	0.95	83.4
ycf1_p3	TACCGTGTCAAAGCCACTTC	AAGTTCCTCGTTGGTCACAC	50.0	50.0	58.1	58.1	196 bp	0.95	82.7
ycf1_p4	CATACCGTGTCAAAGCCACT	AAGTTCCTCGTTGGTCACAC	50.0	50.0	58.2	58.1	198 bp	0.95	82.1
ycf1_p5	AGATTGTTGGGCATACCGTG	AAGTTCCTCGTTGGTCACAC	50.0	50.0	58.2	58.1	209 bp	0.95	81.7