Hotspot

ccsA-ndhD

SSC · 119555-119912 · 358 bp

Back to Cotinus

Pi 0.021

MarkerSeek score 48.60

Primer available yes

Label ccsA-ndhD

Feature Metadata

label_name: ccsA-ndhD
feature_type: igs
region: SSC
length_bp: 358
variable_sites: 15
pi: 0.021
unique_haplotype_count: 6
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 48.60

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-ndhD_p1	TGGATATGCTACTTCGGGGT	TTATCGATGGCTTCCCTTGC	50.0	50.0	57.9	58.0	783-784 bp	1.0	81.4
ccsA-ndhD_p2	AGCGCTATTTTTACCCAGGG	TTATCGATGGCTTCCCTTGC	50.0	50.0	57.9	58.0	1374-1375 bp	1.0	81.1
ccsA-ndhD_p3	AGCGCTATTTTTACCCAGGG	ATGGGTTTATTAGCGCTGCA	50.0	45.0	57.9	57.9	1502-1503 bp	1.0	80.9
ccsA-ndhD_p4	AGCGCTATTTTTACCCAGGG	GAACTATTACCGCACGCTCA	50.0	50.0	57.9	58.1	1716-1717 bp	1.0	80.5
ccsA-ndhD_p5	AGCGCTATTTTTACCCAGGG	TATCTTGACGAAATGGGCGG	50.0	50.0	57.9	58.1	1437-1438 bp	0.857143	75.1