Hotspot

rpoA

LSC · 79789-80862 · 1074 bp

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Pi 0.00302

MarkerSeek score 37.30

Primer available yes

Label rpoA

Feature Metadata

label_name: rpoA
feature_type: gene
region: LSC
length_bp: 1074
variable_sites: 22
pi: 0.00302
unique_haplotype_count: 11
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 37.30

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
rpoA_p1	CCTTCGGGGGATGGATCTAT	TTGTGGATTCAAGGGCACAA	55.0	45.0	58.0	57.9	2088-2101 bp	1.0	81.1
rpoA_p2	CCTTCGGGGGATGGATCTAT	ACCCGACGGAAAAGTCAAAA	55.0	45.0	58.0	58.0	2351-2364 bp	0.904762	77.2
rpoA_p3	CTCGAGCCGGATGATGAAAA	ACCCGACGGAAAAGTCAAAA	50.0	45.0	58.1	58.0	2387-2400 bp	0.904762	77.1
rpoA_p4	TTGGTTGGGTATTGGTGCAA	ACCCGACGGAAAAGTCAAAA	45.0	45.0	57.9	58.0	1897-1910 bp	0.904762	77.1
rpoA_p5	GCCAAAGGTATGGGGCATAA	ACCCGACGGAAAAGTCAAAA	50.0	45.0	57.9	58.0	2265-2278 bp	0.904762	76.9