Filename                                    Description
--------                                    -----------
jp__oXHMJS.align                            PSIBLAST alignment with gaps and redundancy removed in FASTA format
jp__oXHMJS.als                              Alscript command file. Used to generate PS/PDF outputjp__oXHMJS.blast.gz                         PSIBLAST output (compressed)
jp__oXHMJS.coils.csv                        The output from coils in CSV format
jp__oXHMJS.coilseq.lupas_14                 The output from coils using a window length of 14
jp__oXHMJS.coilseq.lupas_21                 The output from coils using a window length of 21
jp__oXHMJS.coilseq.lupas_28                 The output from coils using a window length of 28
jp__oXHMJS.concise                          The prediction in pseudo-CSV format, including the coiled-coil prediction, solvent accessiblity and the sequence alignment
jp__oXHMJS.concise.blc                      A BLC file of the prediction and alignment
jp__oXHMJS.concise.pdf                      A PDF file of the prediction and alignment
jp__oXHMJS.fasta                            Input query sequence in FASTA format
jp__oXHMJS.full_MSA.fasta                   The full multuple sequence alignment before JPred filters. Gaps/insertions shown. FASTA format.
jp__oXHMJS.hmm                              The HHMer2 profile of the alignment
jp__oXHMJS.html                             A HTML file of the prediction and alignment
jp__oXHMJS.input                            Your raw input
jp__oXHMJS.jalview                          A Jalview annotation file to be read in with the .align file to view the predictions in Jalview
jp__oXHMJS.jnet                             The output from Jnet
jp__oXHMJS.profile                          PSIBLAST profile
jp__oXHMJS.pssm                             PSIBLAST PSSM in a format for Jnet
jp__oXHMJS.seq                              Your sequence
jp__oXHMJS.simple.html                      The brief HTML output of the query sequence and prediction only
jp__oXHMJS.svg.html                         A Jalview generated SVG file with summary of the results.