Hotspot

ccsA

SSC · 108441-109409 · 969 bp

Back to Echinochloa

Pi 0.00216

MarkerSeek score 36.30

Primer available yes

Label ccsA

Feature Metadata

label_name: ccsA
feature_type: gene
region: SSC
length_bp: 969
variable_sites: 5
pi: 0.00216
unique_haplotype_count: 4
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 36.30

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	GGCGGCAGTCTAGAAAAAGA	AAAAGACGGTCAAGGGGTTC	50.0	50.0	57.9	58.0	1130 bp	0.857143	73.8
ccsA_p2	GGCGGCAGTCTAGAAAAAGA	GAAAAGACGGTCAAGGGGTT	50.0	50.0	57.9	58.0	1131 bp	0.857143	73.8
ccsA_p3	GGCGGCAGTCTAGAAAAAGA	TTGAAAAGACGGTCAAGGGG	50.0	50.0	57.9	58.0	1133 bp	0.857143	73.8
ccsA_p4	TAGACACGCTGCTCTTAGGA	AAAAGACGGTCAAGGGGTTC	50.0	50.0	57.9	58.0	1184 bp	0.857143	73.6
ccsA_p5	TAGACACGCTGCTCTTAGGA	GAAAAGACGGTCAAGGGGTT	50.0	50.0	57.9	58.0	1185 bp	0.857143	73.6