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