Hotspot

rpoA

SSC · 159073-160320 · 1248 bp

Back to Oedogonium

Pi 0.188

MarkerSeek score 81.50

Primer available yes

Label rpoA

Feature Metadata

label_name: rpoA
feature_type: gene
region: SSC
length_bp: 1248
variable_sites: 381
pi: 0.188
unique_haplotype_count: 4
primer_available: yes
alignment_reliability: 0.98
markerseek_score: 81.50

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
rpoA_p1	CTTTCCTTTTGTCGTGCTGC	CCAGGGGTCATCAAATCGAG	50.0	55.0	58.2	58.0	2266-2276 bp	0.5	60.6
rpoA_p2	CTTTCCTTTTGTCGTGCTGC	GAATGCCCTCAGTCGGATTT	50.0	50.0	58.2	58.0	2123-2132 bp	0.5	60.6
rpoA_p3	CTTTCCTTTTGTCGTGCTGC	TCCGCTGAGCTCCATTAAAC	50.0	50.0	58.2	58.0	2631-2641 bp	0.5	60.3
rpoA_p4	CTTTCCTTTTGTCGTGCTGC	GTATGAATGCCCTCAGTCGG	50.0	55.0	58.2	58.1	2127-2136 bp	0.5	59.9
rpoA_p5	CTTTCCTTTTGTCGTGCTGC	TTGAACGTGAAGTGCGTACA	50.0	45.0	58.2	58.1	2182 bp	0.25	47.5