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'FScanR' identifies PRF events by using a well-established template based technique. The template is represented by a free-form text file with four columns and one row. The template includes (identifier of) the DNA or cDNA sequence (at the top) and peaks/peaks/izkorra/plots (all in the same order). The four columns represent the following: 1) The 'query' sequence; 2) The'subject' sequence; 3) The 'offset' (in either 5'→3' or 3'→5'); and 4) The'score' (minus score if 'query' sequence is on 5'→3' and minus score if 'query' sequence is on 3'→5'). The'score' is calculated by FScanR via the 'S' attribute. By default, the five parameters of 'query' sequence,'subject' sequence, offset, score, and window size will be parameterized by user. For diamond BLASTX, 'offset' and'score' will have no default values but may be specified by user. The top row is reformatted to be readable by Excel and other office spreadsheets and copied to clipboard. The template file is provided by default to allow users to customize.'FScanR' will start to search for the given query sequence. If the search remains at 'query' position with 'fit' parameter set to 1, the search will continue to the right mutually exclusive to both the query and the subject sequence. If the search reaches the stop time, the search will stop and the search output is returned as!RESULT!. If the search stops at the subject sequence, the search will continue to the right as if you had set the parameter to 1 by default. If the search hits the first peak on either the query or subject sequence, its output is displayed together with the 'query' and'subject' sequence. The searching procedure will stop if there are no more peaks in the two sequences or if the search time limit is reached. For diamond BLASTX, the template of the itemized step starts at -offset and ends at the first pair of mutually exclusive peaks. The input to the search step in diamond BLASTX should be three files: one file for each row of the template (i.e. a single 'query' and'subject' sequence). d2c66b5586