Hotspot

trnM-CAU-trnI-CAU

IRa · 180240-182694 · 2455 bp

Back to Rhododendron

Pi 0.105
MarkerSeek score 76.70
Primer available yes
Label trnM-CAU-trnI-CAU

Feature Metadata

label_name
trnM-CAU-trnI-CAU
feature_type
igs
region
IRa
length_bp
2455
variable_sites
1054
pi
0.105
unique_haplotype_count
21
primer_available
yes
alignment_reliability
0.95
markerseek_score
76.70

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
trnM-CAU-trnI-CAU_p1 CTCTCAGACGAGCTAGGACA GAATGGTTAAAGCGCCCAAC 55.0 50.0 58.0 58.0 647-2358 bp 0.909091 86.8
trnM-CAU-trnI-CAU_p2 ACCGCGAAGGCTATGAATTT GAATGGTTAAAGCGCCCAAC 45.0 50.0 58.0 58.0 1043-2754 bp 0.909091 83.7
trnM-CAU-trnI-CAU_p3 CTCTCAGACGAGCTAGGACA TCGAACAAAAGAAGACGGCA 55.0 45.0 58.0 58.1 1107-2823 bp 0.227273 60.2
trnM-CAU-trnI-CAU_p4 ACCGCGAAGGCTATGAATTT TCGAACAAAAGAAGACGGCA 45.0 45.0 58.0 58.1 1503-2892 bp 0.181818 57.0
trnM-CAU-trnI-CAU_p5 TTGAACCAATGACTCCTGCC GAATGGTTAAAGCGCCCAAC 50.0 50.0 58.1 58.0 363 bp 0.045455 41.0
trnM-CAU-trnI-CAU_p1 CGATAGGTCCCGTTTGGTTT CGCTTAACCATTCAGCCATG 50.0 50.0 57.9 57.5 2596-2603 bp 0.090909 40.2
trnM-CAU-trnI-CAU_p2 TACGATAGGTCCCGTTTGGT CGCTTAACCATTCAGCCATG 50.0 50.0 58.1 57.5 2598-2605 bp 0.090909 39.8
trnM-CAU-trnI-CAU_p3 ATAGGTCCCGTTTGGTTTGG CGCTTAACCATTCAGCCATG 50.0 50.0 57.8 57.5 2594-2601 bp 0.090909 39.3
trnM-CAU-trnI-CAU_p4 CCCGTTTGGTTTGGTTCTCT CGCTTAACCATTCAGCCATG 50.0 50.0 58.3 57.5 2588-2595 bp 0.090909 38.5
trnM-CAU-trnI-CAU_p5 TCCCGTTTGGTTTGGTTCTC CGCTTAACCATTCAGCCATG 50.0 50.0 58.3 57.5 2589-2596 bp 0.090909 38.5