The first primer pair seems very well, we are going to settle for this pair. including multiple sequence alignments and annotations. is to consider installing a program such as CLC Sequence Viewer or Molecular. UGENE will allow you to annotate an alignment and highlight regions of interest (e.g., intron. Thus a large deviation from the ideal value and a small tolerance will give a large negative contribution in the final score and a small deviation from the ideal and a high tolerance will give a small negative contribution in the final score. QIAGEN CLC Genomics Workbench QIAGEN CLC Genomics Workbench is a powerful solution that works for everyone, no matter the workflow. Keywords: BLAST multiple sequence alignment phylogram Zika virus Algorithm. The negative contribution to the final score is determined by how much the parameter deviates from the ideal value and is scaled by the specified tolerance:Ĭontribution = (ideal - actual value)/tolerance The ProSA Z-Score of 2.29 (highlighted as black dot) and the better. Self-annealing score: the ideal value is 0 and the tolerance corresponds to the maximum value specified in The sequence obtained was analysed with CLC sequence viewer v 7.6.1.and similarity. Each parameter is assigned an ideal value and a tolerance.
#Highlight sequence clc sequence viewer software#
The ideal score for a pair is 100 and pairs are ranked inĭescending order. CLC Sequence Viewer 64-bit CLC bio in Education \ Science CLC Sequence Viewer creates a software environment enabling users to make a large number of bioinformatics analyses, combined with smooth data management, and excellent graphical viewing and output options. Primer pairs such as the pair-annealing score. Parameters related to individual primers, such as the secondary structure score, and parameters related to CLC Main Workbench employs a proprietary algorithm to rank primer pairs.
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