Filename                                    Description
--------                                    -----------
jp__NP3iDa.align                            PSIBLAST alignment with gaps and redundancy removed in FASTA format
jp__NP3iDa.als                              Alscript command file. Used to generate PS/PDF outputjp__NP3iDa.blast.gz                         PSIBLAST output (compressed)
jp__NP3iDa.coils.csv                        The output from coils in CSV format
jp__NP3iDa.coilseq.lupas_14                 The output from coils using a window length of 14
jp__NP3iDa.coilseq.lupas_21                 The output from coils using a window length of 21
jp__NP3iDa.coilseq.lupas_28                 The output from coils using a window length of 28
jp__NP3iDa.concise                          The prediction in pseudo-CSV format, including the coiled-coil prediction, solvent accessiblity and the sequence alignment
jp__NP3iDa.concise.blc                      A BLC file of the prediction and alignment
jp__NP3iDa.concise.pdf                      A PDF file of the prediction and alignment
jp__NP3iDa.fasta                            Input query sequence in FASTA format
jp__NP3iDa.full_MSA.fasta                   The full multuple sequence alignment before JPred filters. Gaps/insertions shown. FASTA format.
jp__NP3iDa.hmm                              The HHMer2 profile of the alignment
jp__NP3iDa.html                             A HTML file of the prediction and alignment
jp__NP3iDa.input                            Your raw input
jp__NP3iDa.jalview                          A Jalview annotation file to be read in with the .align file to view the predictions in Jalview
jp__NP3iDa.jnet                             The output from Jnet
jp__NP3iDa.profile                          PSIBLAST profile
jp__NP3iDa.pssm                             PSIBLAST PSSM in a format for Jnet
jp__NP3iDa.seq                              Your sequence
jp__NP3iDa.simple.html                      The brief HTML output of the query sequence and prediction only
jp__NP3iDa.svg.html                         A Jalview generated SVG file with summary of the results.