NetCGlyc 1.0 Output format

Output format

DESCRIPTION

The output conforms to the GFF format. For each tryptophan residue in the input sequences the server prints a line in the form:

sequence name
prediction source ("netCglyc" and version)
predicted feature (C-mannosylation)
residue number
prediction score (a number in 0.0-1.0)
non-applicable (GFF specific)
answer: "W" if the score is greater than 0.5, else "." (dot).

Only the residues with scores higher than 0.5, marked with "W" are predicted as C-mannosylated.

The example below shows the NetCGlyc 1.0 output for ADAMTS-like protein 5 precursor (ADAMTSL-5), taken from the UniProt entry ATL5_HUMAN. One of the 12 tryptophan residues in the sequence (#41) is predicted as C-mannosylated, two more (#38 and #44) have scores close to the threshold.

EXAMPLE OUTPUT

##gff-version 2 ##source-version netCglyc-1.0b ##date 2007-03-14 ##Type Protein # seqname source feature start end score +/- ? # ---------------------------------------------------------------------------- Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 21 21 0.269 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 38 38 0.459 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 41 41 0.639 . W Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 44 44 0.484 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 72 72 0.221 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 115 115 0.285 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 207 207 0.228 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 244 244 0.246 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 299 299 0.160 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 317 317 0.203 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 410 410 0.243 . . Q6ZMM2_ATL5_HUMAN netCglyc-1.0b C-manno 454 454 0.227 . . # ----------------------------------------------------------------------------

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