Hotspot

ccsA

SSC · 121700-122671 · 972 bp

Back to Orthosiphon

Pi 0.452

MarkerSeek score 80.00

Primer available yes

Label ccsA

Feature Metadata

label_name: ccsA
feature_type: gene
region: SSC
length_bp: 972
variable_sites: 357
pi: 0.452
unique_haplotype_count: 2
primer_available: yes
alignment_reliability: 0.81
markerseek_score: 80.00

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	AACGGGGCCCTTTTACAAAT	TAGACACGCTGCTCTTAGGA	45.0	50.0	58.0	57.9	1880 bp	0.5	58.9
ccsA_p2	AACGGGGCCCTTTTACAAAT	ACAAGCCGCTATGGTGAAAT	45.0	45.0	58.0	57.9	1903 bp	0.5	58.8
ccsA_p3	AACGGGGCCCTTTTACAAAT	AAATTGGTAGACACGCTGCT	45.0	45.0	58.0	57.8	1887 bp	0.5	58.4
ccsA_p4	AACGGGGCCCTTTTACAAAT	GGTAGACACGCTGCTCTTAG	45.0	55.0	58.0	57.8	1882 bp	0.5	58.3
ccsA_p5	AACGGGGCCCTTTTACAAAT	GTAGACACGCTGCTCTTAGG	45.0	55.0	58.0	57.8	1881 bp	0.5	58.3