Hotspot

ccsA

SSC · 44818-45756 · 939 bp

Back to Chaetoceros

Pi 0.123

MarkerSeek score 79.00

Primer available yes

Label ccsA

Feature Metadata

label_name: ccsA
feature_type: gene
region: SSC
length_bp: 939
variable_sites: 262
pi: 0.123
unique_haplotype_count: 9
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 79.00

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_p1	CCGATTGCTCTACCACTGAG	CAATGTGTTCGTGCATGTCC	55.0	50.0	57.8	58.0	1785-1870 bp	1.0	89.7
ccsA_p2	AAGATTGCTTGTACGCAGCT	CAATGTGTTCGTGCATGTCC	45.0	50.0	58.2	58.0	1309 bp	0.111111	42.7
ccsA_p3	AAGATTGCTTGTACGCAGCT	CGGTTGTACGCAATGTGTTC	45.0	50.0	58.2	58.1	1319 bp	0.111111	42.5
ccsA_p4	AAGATTGCTTGTACGCAGCT	GGTTGTACGCAATGTGTTCG	45.0	50.0	58.2	58.1	1318 bp	0.111111	42.5
ccsA_p5	AAGATTGCTTGTACGCAGCT	TGTTCGTGCATGTCCTACTG	45.0	50.0	58.2	57.9	1304 bp	0.111111	42.3