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