Hotspot

ccsA

SSC · 110706-111665 · 960 bp

Back to Rhinanthus

Pi 0.00139

MarkerSeek score 59.60

Primer available yes

Label ccsA

Feature Metadata

label_name: ccsA
feature_type: gene
region: SSC
length_bp: 960
variable_sites: 2
pi: 0.00139
unique_haplotype_count: 3
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 59.60

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
ccsA_p1	GCGGCATGCGTTTTACTAAA	CCGGGTTCTCTTCAGTTCAC	45.0	55.0	57.7	58.2	1149 bp	1.0	76.5
ccsA_p2	GCGGCATGCGTTTTACTAAA	TATTGTAGTGATTCGCCGGG	45.0	50.0	57.7	57.5	1164 bp	1.0	74.0
ccsA_p3	GCGGCATGCGTTTTACTAAA	CGGGTTCTCTTCAGTTCACA	45.0	50.0	57.7	57.5	1148 bp	1.0	73.9
ccsA_p4	GCGGCATGCGTTTTACTAAA	CCGGCGAATCACTACAGTAT	45.0	50.0	57.7	57.2	1181 bp	1.0	71.8
ccsA_p5	GCGGCATGCGTTTTACTAAA	AGTATTGTAGTGATTCGCCGG	45.0	47.6	57.7	57.9	1166 bp	1.0	69.4