Hotspot

rpoA

LSC · 80034-81053 · 1020 bp

Pi 0.00056

MarkerSeek score 45.90

Primer available yes

Label rpoA

Feature Metadata

label_name: rpoA
feature_type: gene
region: LSC
length_bp: 1020
variable_sites: 2
pi: 0.00056
unique_haplotype_count: 3
primer_available: yes
alignment_reliability: 1.00
markerseek_score: 45.90

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	ATACGGATCGCGTGTTACAG	ACATAATGGATGTCGACCTCC	50.0	47.6	57.9	57.2	1203-1204 bp	1.0	65.2
rpoA_p2	ATACGGATCGCGTGTTACAG	TGATGTAACACCTATGCCACA	50.0	42.9	57.9	57.0	1221-1222 bp	1.0	63.3
rpoA_p3	CGGATCGCGTGTTACAGATA	ACATAATGGATGTCGACCTCC	50.0	47.6	57.6	57.2	1200-1201 bp	1.0	63.0
rpoA_p4	ATACGGATCGCGTGTTACAG	CATAATGGATGTCGACCTCCT	50.0	47.6	57.9	57.0	1202-1203 bp	1.0	62.9
rpoA_p5	ATACGGATCGCGTGTTACAG	TGGATGTCGACCTCCTAAAA	50.0	45.0	57.9	55.9	1197-1198 bp	1.0	62.2