Output format (version 2.1)
An example of output is found below. The results page is composed of the following sections:
You can inspect the distribution of the training data before and after rescaling. If the linear rescale produces a distribution that is too skewed towards zero, you might consider running the analysis again using a logarithmic transformation.
The amino acid preferences at each position in the alignment may also be viewed in a Log-odds matrix (or frequency matrix) format, with positive values indicating favored residues and negative values disallowed amino acids.
For evaluation files in peptide format with associated values (i.e. a similar format as for the training data), performance measures will also be available. If the submission was in FASTA format, the source protein sequence ID is also shown here, and in the case of peptides shared by multiple entries, the sequence IDs are listed separated by / (slash).
Performance measures - motif length 9RMSE = 0.149188
Pearson correlation coefficient = 0.735081
Spearman rank coefficient = 0.731830
View scatterplot of Predicted vs. Observed values
Download complete alignment core on the training data
Save the trained MODEL. You may use this model for a new submission
Sequence motifCores realigned with offset correction
Click here if you have problems visualizing this image
Figure: Visualization of the sequence motif using the Seq2Logo program
View a Log-odds matrix or Frequency matrix representation of the motif
Evaluation dataUploaded 1068 peptides from 6 FASTA entries
See the predictions on the evaluation set
DOWNLOAD a compressed archive with all results files
Scientific problems: Technical problems: