Hotspot

ycf3-trnS-GGA

LSC · 44868-45455 · 588 bp

Back to Cenchrus

Pi 0.0109

MarkerSeek score 63.80

Primer available yes

Label ycf3-trnS-GGA

Feature Metadata

label_name: ycf3-trnS-GGA
feature_type: igs
region: LSC
length_bp: 588
variable_sites: 26
pi: 0.0109
unique_haplotype_count: 9
primer_available: yes
alignment_reliability: 0.99
markerseek_score: 63.80

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
ycf3-trnS-GGA_p1	TTGGCTACAATCGAGGAGGT	ACGGAAAGAGAGGGATTCGA	50.0	50.0	58.4	58.2	704-756 bp	1.0	82.3
ycf3-trnS-GGA_p2	TTGGCTACAATCGAGGAGGT	TTCCAATGCTACGCCTTGAA	50.0	45.0	58.4	57.8	654-706 bp	1.0	82.2
ycf3-trnS-GGA_p3	GGCTACAATCGAGGAGGTCT	ACGGAAAGAGAGGGATTCGA	55.0	50.0	58.6	58.2	702-754 bp	1.0	81.0
ycf3-trnS-GGA_p4	GGCTACAATCGAGGAGGTCT	TTCCAATGCTACGCCTTGAA	55.0	45.0	58.6	57.8	652-704 bp	1.0	80.9
ycf3-trnS-GGA_p5	TTGGCTACAATCGAGGAGGT	AGTTCCAATGCTACGCCTTG	50.0	50.0	58.4	58.5	656-708 bp	1.0	79.3