Hotspot

pafI-trnS-GGA

LSC · 48649-49481 · 833 bp

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Pi 0.102

MarkerSeek score 85.40

Primer available yes

Label pafI-trnS-GGA

Feature Metadata

label_name: pafI-trnS-GGA
feature_type: igs
region: LSC
length_bp: 833
variable_sites: 149
pi: 0.102
unique_haplotype_count: 4
primer_available: yes
alignment_reliability: 0.99
markerseek_score: 85.40

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
pafI-trnS-GGA_p1	ACACGACAGAAGGCATTGTT	GACTATTCCTGCAGCCAGAC	45.0	55.0	58.0	58.1	1850-2369 bp	1.0	91.2
pafI-trnS-GGA_p2	AGTGTAGTGCTTCTTCCCCT	GACTATTCCTGCAGCCAGAC	50.0	55.0	58.0	58.1	2002-2524 bp	1.0	91.0
pafI-trnS-GGA_p3	CTAGCCATCCTTCCTGCAAG	GACTATTCCTGCAGCCAGAC	55.0	55.0	58.0	58.1	2271-2793 bp	1.0	90.8
pafI-trnS-GGA_p4	CCTGCCTGCCATTGGAATAT	GACTATTCCTGCAGCCAGAC	50.0	55.0	58.0	58.1	1943-2460 bp	0.75	78.9
pafI-trnS-GGA_p5	CCTGCCTGCCATTGGAATAT	CCCTCGGTAAACAAAAGCCT	50.0	50.0	58.0	58.1	1258-1818 bp	0.75	77.8