Output format

DESCRIPTION

The output conforms to the GFF version 2 format. For each input sequence the server prints a list of predicted splice sites, both donor and acceptor, showing their positions in the sequence and the prediction confidence scores. Only the sites with scores higher than 0.5 are predicted as splice sites and reported in the list. The sites with the scores higher than 0.8 are marked with 'H' as high confidence predictions.

The example below shows the NetUTR 1.0 output for the sequence taken from the GenBank entry X05196, containing the human aldolase C gene. The 5' UTR intron (155-1411) in that gene is predicted correctly, with high confidence.


EXAMPLE OUTPUT


##gff-version 2
##source-version netUTR-1.0b
##date 2006-03-16
##Type DNA
# seqname            source        feature    start     end  score +/-   ?
# ---------------------------------------------------------------------------
X05196               netUTR-1.0b   acceptor     512     512  0.575  +    
X05196               netUTR-1.0b   acceptor     577     577  0.692  +    
X05196               netUTR-1.0b   acceptor    1189    1189  0.631  +    
X05196               netUTR-1.0b   acceptor    1411    1411  0.861  +    H
X05196               netUTR-1.0b   acceptor    1621    1621  0.501  +    
X05196               netUTR-1.0b   acceptor    1949    1949  0.755  +    
X05196               netUTR-1.0b   acceptor    2378    2378  0.831  +    H
X05196               netUTR-1.0b   acceptor    2590    2590  0.604  +    
X05196               netUTR-1.0b   acceptor    3334    3334  0.532  +    
X05196               netUTR-1.0b   acceptor    3692    3692  0.574  +    
X05196               netUTR-1.0b   acceptor    5292    5292  0.522  +    
X05196               netUTR-1.0b   donor        155     155  0.971  +    H
X05196               netUTR-1.0b   donor        993     993  0.612  +    
X05196               netUTR-1.0b   donor       1536    1536  0.623  +    
X05196               netUTR-1.0b   donor       2261    2261  0.508  +    
X05196               netUTR-1.0b   donor       2463    2463  0.604  +    
X05196               netUTR-1.0b   donor       3335    3335  0.509  +    
X05196               netUTR-1.0b   donor       4297    4297  0.589  +    
X05196               netUTR-1.0b   donor       4455    4455  0.625  +    
X05196               netUTR-1.0b   donor       5929    5929  0.616  +    
# ---------------------------------------------------------------------------