Fig. 1

PhytoCRISPex workflow. The figure represents (a) the working design of PhytoCRISPex, taking NGG as a PAM sequence and (b) the description of sample PhytoCRISPex output file. a The flowchart here demonstrates the working of the web server and the standalone version of the software. The genome is indexed and putative sgRNA targets (structured as [5′-G/N(19 bps)NGG/NAG-3′]/[3′-CCN/CTN(19 bps)C/N-5′]) from user given query sequences are aligned locally against it. The aligned output is then directed through two check levels, passing both assigns a putative sgRNA target as potential target for cas9 activity. b The output file of the software is a comma separated file which can be viewed easily using Excel. The file includes three basic columns. The first column represents gene name with start, stop and sequence of the sgRNA targets. The next two columns are the results of check level one and two, respectively