Hotspot

ccsA-ndhD

SSC · 109410-109609 · 200 bp

Back to Echinochloa

Pi 0.0186

MarkerSeek score 53.30

Primer available yes

Label ccsA-ndhD

Feature Metadata

label_name: ccsA-ndhD
feature_type: igs
region: SSC
length_bp: 200
variable_sites: 11
pi: 0.0186
unique_haplotype_count: 4
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 53.30

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	GCACTTGTAGCTTCGATAGGA	CTCGCTATCTGTTGACAGGG	47.6	55.0	57.6	57.8	362-367 bp	1.0	70.3
ccsA-ndhD_p2	GCACTTGTAGCTTCGATAGGA	GTTGACAGGGTAGAGGCTCT	47.6	55.0	57.6	58.4	352-357 bp	1.0	68.6
ccsA-ndhD_p3	GCACTTGTAGCTTCGATAGGA	TCGCTATCTGTTGACAGGGT	47.6	50.0	57.6	58.4	361-366 bp	1.0	68.5
ccsA-ndhD_p4	GCACTTGTAGCTTCGATAGG	CTCGCTATCTGTTGACAGGG	50.0	55.0	56.1	57.8	362-367 bp	1.0	66.2
ccsA-ndhD_p5	GCACTTGTAGCTTCGATAGGA	CTGTTGACAGGGTAGAGGCT	47.6	55.0	57.6	58.7	354-359 bp	1.0	66.2