Hotspot

ccs1

SSC · 47493-48767 · 1275 bp

Back to Chaetoceros

Pi 0.183

MarkerSeek score 79.10

Primer available yes

Label ccs1

Feature Metadata

label_name: ccs1
feature_type: gene
region: SSC
length_bp: 1275
variable_sites: 503
pi: 0.183
unique_haplotype_count: 9
primer_available: yes
alignment_reliability: 0.99
markerseek_score: 79.10

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
ccs1_p1	CCACTCACGACCCATGTAAG	CAGAATCACGACTACGCCAA	55.0	50.0	58.0	58.0	2363 bp	0.111111	44.3
ccs1_p2	CACGACCCATGTAAGATGCA	CAGAATCACGACTACGCCAA	50.0	50.0	58.0	58.0	2358 bp	0.111111	44.2
ccs1_p3	TACAGGCTCACGGATACCAT	CAGAATCACGACTACGCCAA	50.0	50.0	57.9	58.0	2171 bp	0.111111	43.7
ccs1_p4	CCATAATGAAACGCCTTCGC	CAGAATCACGACTACGCCAA	50.0	50.0	57.9	58.0	2012 bp	0.111111	43.5
ccs1_p5	GAAGTGCATACCGATAGCGT	CAGAATCACGACTACGCCAA	50.0	50.0	57.9	58.0	2249 bp	0.111111	43.3