rCRUX Generated Baker Dlp1.5-H/Oordlp4 Reference Database

rCRUX generated reference database using NCBI nt blast database downloaded in December 2022.

Primer Name:  Scott Baker Dlp1.5-H/Oordlp4
Gene:   D loop
Length of Target:    350-390
get_seeds_local() minimum length:    245
get_seeds_local() maximum length:    495
blast_seeds() minimum length:    205
blast_seeds() maximum length:    455
max_to_blast:  100
Forward Sequence (5'-3'):   TCACCCAAAGCTGRARTTCTA
Reverse Sequence (5'-3'):    GCGGGTTGCTGGTTTCACG
Reference:   Baker, C. S., Steel, D., Nieukirk, S., & Klinck, H. (2018). Environmental DNA (eDNA) from the wake of the whales: Droplet digital PCR for detection and species identification. Frontiers in Marine Science, 5, 133. https://doi.org/10.3389/fmars.2018.00133

We chose default rCRUX parameters for get_blast_seeds() of percent coverage of 70, percent identity of 70, evalue 3e+7, and max number of blast alignments = '100000000' and for blast_seeds() of coverage of 70, percent identity of 70, evalue 3e+7, rank of genus, and max number of blast alignments = '10000000'.