Hotspot

trnR-UCU-atpA

LSC · 10715-11190 · 476 bp

Back to Rhizophora

Pi 0.00436

MarkerSeek score 62.20

Primer available yes

Label trnR-UCU-atpA

Feature Metadata

label_name: trnR-UCU-atpA
feature_type: igs
region: LSC
length_bp: 476
variable_sites: 3
pi: 0.00436
unique_haplotype_count: 3
primer_available: yes
alignment_reliability: 0.96
markerseek_score: 62.20

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
trnR-UCU-atpA_p1	GGTTCAAATCCTATTGGACGC	TTTCGGCTTCAGGAACAAGT	47.6	45.0	57.3	57.7	522-611 bp	1.0	66.5
trnR-UCU-atpA_p2	TTCGAATTGAAAAGCGTCCA	TTTCGGCTTCAGGAACAAGT	40.0	45.0	56.3	57.7	585-674 bp	1.0	66.0
trnR-UCU-atpA_p3	GGTTCAAATCCTATTGGACGC	CGAAGAAGCAGAAGCCCTTT	47.6	50.0	57.3	58.5	574-663 bp	1.0	65.2
trnR-UCU-atpA_p4	GGTTCAAATCCTATTGGACGC	TTCACCGAAGAAGCAGAAGC	47.6	50.0	57.3	58.5	579-668 bp	1.0	65.1
trnR-UCU-atpA_p5	TTCGAATTGAAAAGCGTCCA	CGAAGAAGCAGAAGCCCTTT	40.0	50.0	56.3	58.5	637-726 bp	1.0	64.8