Hotspot

ycf1

SSC · 129180-134843 · 5664 bp

Back to Theobroma

Pi 0.00471

MarkerSeek score 47.60

Primer available yes

Label ycf1

Feature Metadata

label_name: ycf1
feature_type: gene
region: SSC
length_bp: 5664
variable_sites: 40
pi: 0.00471
unique_haplotype_count: 3
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 47.60

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	AGGACTCAATCTCGGCCTTA	TGGATCACCATTCCAAGTAA	50.0	40.0	57.8	53.9	215 bp	1.0	47.5
ycf1_p2	AGGACTCAATCTCGGCCTTA	TGGATCACCATTCCAAGTAAA	50.0	38.1	57.8	54.8	215 bp	1.0	46.6
ycf1_p3	ACTGACCCAGGACTCAATCT	TGGATCACCATTCCAAGTAA	50.0	40.0	57.7	53.9	223 bp	1.0	46.1
ycf1_p4	GGTACTGACCCAGGACTCAA	TGGATCACCATTCCAAGTAA	55.0	40.0	58.4	53.9	226 bp	1.0	45.8
ycf1_p5	TTGGTACTGGTACTGACCCA	TGGATCACCATTCCAAGTAA	50.0	40.0	57.6	53.9	234 bp	1.0	45.5