Hotspot

ccsA

SSC · 121285-122256 · 972 bp

Back to Rotheca

Pi 0.485

MarkerSeek score 80.90

Primer available yes

Label ccsA

Feature Metadata

label_name: ccsA
feature_type: gene
region: SSC
length_bp: 972
variable_sites: 402
pi: 0.485
unique_haplotype_count: 2
primer_available: yes
alignment_reliability: 0.85
markerseek_score: 80.90

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	AACGGGGCCCTTTTACAAAT	TGGCGGCATATCATCTCCTA	45.0	50.0	58.0	58.1	1799 bp	0.5	59.4
ccsA_p2	AACGGGGCCCTTTTACAAAT	TGCGCGACAAACAACTAAAC	45.0	45.0	58.0	57.9	2247 bp	0.5	59.1
ccsA_p3	AACGGGGCCCTTTTACAAAT	TTTTGGAAAGGGAAGGGGTG	45.0	50.0	58.0	57.9	2333 bp	0.5	59.1
ccsA_p4	AACGGGGCCCTTTTACAAAT	TAGACACGCTGCTCTTAGGA	45.0	50.0	58.0	57.9	1852 bp	0.5	58.9
ccsA_p5	AACGGGGCCCTTTTACAAAT	ACAAGCCGCTATGGTGAAAT	45.0	45.0	58.0	57.9	1875 bp	0.5	58.8