Sentence examples for marker sequence was from inspiring English sources
High quality marker sequence was processed through a CUGI pipeline consisting of Repeat Masker [ 49] with the RepBase database [ 50], cross_match [ 51], and Tandem Repeat Finder [ 52].
In some instances, the best BLAST hit of the marker sequence was not on the homologous chromosome of P. trichocarpa and S. purpurea.
GBS07859 showed a match with contig1041452 (1,002 bp) of Chinese Spring genomic sequences (http://www.cerealsdb.uk.net) and a cDNA sequence of diploid wheat T. urartu UCW_Tu-k41_contig_833), suggesthat thet the GBS07859 marker sequence was amplified from a gene.
The ARF2 transcription marker sequence was amplified with forward primer 5′-TAGTTGGAATAGGATTTCGTAGGATCCATGGCGAGTTCGGAGGTTTC-3′ and reverse primer 5′-AGTATGGAGTTGGATTTCGTTGGATCCTTAAGAGTTCCCAGCGCTG-3′, and subcloned into a modified pGreenII vector containing a LIC tail containing the ARF2 promoter.
The highest scoring alignment for each marker sequence was identified, and was considered comparative only if all high scoring alignments for that marker consistently aligned with the same region of the human genome.
We set the E-value ≤ 10−6 and the match length to over 40 bp (DArT-seq marker sequence was 69 bp in length), to filter the matches to ancestral blocks for SY-PM genetic mapping population.
Primer pairs targeting the SCAR marker sequence were designed, which enabled species-specific detection and avoided cross-amplification of other species of Serranidae fish.
If none of the results returned for a marker sequence were supported, then the top hit was retained, despite the lack of support.
Together the MATα locus and LEU2 marker sequence were amplified using PCR and transformed into YPH278 to replace the SUP11 and URA3 sequence on the present mini-chromosome (MC).
Genome supercontigs containing the RFLP marker sequences were downloaded from VectorBase and screened with Tandem Repeats Finder (TRF) software using the default parameters [25].
Each of the 148 DArT marker sequences were queried against 1) all other sequenced DArT markers in the same study and 2) GenBank (www.ncbi.nlm.nih.gov) to identify putative sequence identities using the Basic Local Alignment Search Tool [23] for nucleotides (blastn) and translated to proteins (tblastx).
