Filename Description -------- ----------- jp__Paf8WS.align PSIBLAST alignment with gaps and redundancy removed in FASTA format jp__Paf8WS.als Alscript command file. Used to generate PS/PDF outputjp__Paf8WS.blast.gz PSIBLAST output (compressed) jp__Paf8WS.coils.csv The output from coils in CSV format jp__Paf8WS.coilseq.lupas_14 The output from coils using a window length of 14 jp__Paf8WS.coilseq.lupas_21 The output from coils using a window length of 21 jp__Paf8WS.coilseq.lupas_28 The output from coils using a window length of 28 jp__Paf8WS.concise The prediction in pseudo-CSV format, including the coiled-coil prediction, solvent accessiblity and the sequence alignment jp__Paf8WS.concise.blc A BLC file of the prediction and alignment jp__Paf8WS.concise.pdf A PDF file of the prediction and alignment jp__Paf8WS.fasta Input query sequence in FASTA format jp__Paf8WS.full_MSA.fasta The full multuple sequence alignment before JPred filters. Gaps/insertions shown. FASTA format. jp__Paf8WS.hmm The HHMer2 profile of the alignment jp__Paf8WS.html A HTML file of the prediction and alignment jp__Paf8WS.input Your raw input jp__Paf8WS.jalview A Jalview annotation file to be read in with the .align file to view the predictions in Jalview jp__Paf8WS.jnet The output from Jnet jp__Paf8WS.profile PSIBLAST profile jp__Paf8WS.pssm PSIBLAST PSSM in a format for Jnet jp__Paf8WS.seq Your sequence jp__Paf8WS.simple.html The brief HTML output of the query sequence and prediction only jp__Paf8WS.svg.html A Jalview generated SVG file with summary of the results.