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

<p>rCRUX generated reference database&nbsp;using NCBI nt blast database downloaded in December 2022.</p> <p>Primer Name:&nbsp; Scott Baker Dlp1.5-H/Oordlp4<br> Gene:&nbsp; &nbsp;D loop<br> Length of Target:&nbsp; &nbsp; 350-390<br> get_seeds_local() minimum length:&nbsp; &nbsp; 245<br> get_seeds_local() maximum length:&nbsp; &nbsp; 495<br> blast_seeds() minimum length:&nbsp; &nbsp; 205<br> blast_seeds() maximum length:&nbsp; &nbsp; 455<br> max_to_blast:&nbsp; 100<br> Forward Sequence (5&#39;-3&#39;):&nbsp; &nbsp;TCACCCAAAGCTGRARTTCTA<br> Reverse Sequence (5&#39;-3&#39;):&nbsp; &nbsp; GCGGGTTGCTGGTTTCACG<br> Reference:&nbsp; &nbsp;Baker, C. S., Steel, D., Nieukirk, S., &amp; 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.&nbsp;https://doi.org/10.3389/fmars.2018.00133</p> <p>We chose default rCRUX parameters for&nbsp;<em>get_blast_seeds</em>() of percent coverage of 70, percent identity of 70, evalue 3e+7, and max number of blast alignments = &#39;100000000&#39; and for&nbsp;<em>blast_seeds</em>() of coverage of 70, percent identity of 70, evalue 3e+7, rank of genus, and max number of blast alignments = &#39;10000000&#39;. &nbsp;</p>