Hotspot

ccsA-ndhD

SSC · 117257-117578 · 322 bp

Back to Allomorphia

Pi 0.036

MarkerSeek score 66.00

Primer available yes

Label ccsA-ndhD

Feature Metadata

label_name: ccsA-ndhD
feature_type: igs
region: SSC
length_bp: 322
variable_sites: 25
pi: 0.036
unique_haplotype_count: 5
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 66.00

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	ATGCAGCTCTTTTATGCGGA	TTTTGATTCTGGGCCGAGAG	45.0	50.0	58.0	57.9	984-988 bp	1.0	82.4
ccsA-ndhD_p2	TGCAGCTCTTTTATGCGGAT	TTTTGATTCTGGGCCGAGAG	45.0	50.0	58.0	57.9	983-987 bp	1.0	82.4
ccsA-ndhD_p3	ATGCAGCTCTTTTATGCGGA	TCAATGGCTTCCCTTGCATT	45.0	45.0	58.0	58.1	1202-1206 bp	1.0	82.3
ccsA-ndhD_p4	TGCAGCTCTTTTATGCGGAT	TCAATGGCTTCCCTTGCATT	45.0	45.0	58.0	58.1	1201-1205 bp	1.0	82.3
ccsA-ndhD_p5	TTAGTACCCGCGCTTCAATC	TCAATGGCTTCCCTTGCATT	50.0	45.0	58.1	58.1	1263-1267 bp	1.0	81.9