Hotspot

ccsA

SSC · 109742-110707 · 966 bp

Back to Saccharum

Pi 0.00104

MarkerSeek score 31.60

Primer available yes

Label ccsA

Feature Metadata

label_name: ccsA
feature_type: gene
region: SSC
length_bp: 966
variable_sites: 5
pi: 0.00104
unique_haplotype_count: 4
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 31.60

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_p1	CTCAAGCATCTCGGTTCGAA	GGGAATGAGCGGTTTTGTTG	50.0	50.0	58.0	57.9	1594 bp	1.0	83.9
ccsA_p2	AAGCATCTCGGTTCGAATCC	GGGAATGAGCGGTTTTGTTG	50.0	50.0	58.1	57.9	1591 bp	1.0	83.5
ccsA_p3	CTCAAGCATCTCGGTTCGAA	GAATGAGCGGTTTTGTTGCA	50.0	45.0	58.0	57.9	1592 bp	1.0	83.4
ccsA_p4	ATTAGCCGCCATGGTGAAAT	GGGAATGAGCGGTTTTGTTG	45.0	50.0	57.9	57.9	1644 bp	1.0	83.3
ccsA_p5	CTCAAGCATCTCGGTTCGAA	AATGAGCGGTTTTGTTGCAG	50.0	45.0	58.0	57.9	1591 bp	1.0	83.3