Index of /species/data/acyr/annotation

 Name                       Last modified       Size  Description

 Parent Directory           18-Jul-2008 15:12      -  
 Aphid-annotation-notes.txt 15-Aug-2008 12:18     3k  
 acyr-augmap5c-best4.aa.gz  18-Jul-2008 15:16   6.5M  
 acyr-augmap5c-best4.gff.gz 18-Jul-2008 13:48  15.4M  
 acyr1_annot.ugp.xml.gz     18-Jul-2008 14:24  12.2M  
 aphid-bestgeneset.txt      09-Oct-2008 16:54     6k  

NOTES on computational annotated gene prediciton for pea aphid Acyr1.0 genome

This is a "best" prediction set using Augustus with all evidence (cDNA, mapped proteins
and Gnomon gene models).

acyr-augmap5c-best4.gff  : best set prediction models with annotations
acyr-augmap5c-best4.aa   : predicted proteins
acyr1_annot.ugp.xml      : gene annotations in Unified Gene Page format (gmod.org/Common_Gene_Page)

Annotations include evidence IDs (cDNA and proteins matched with scores), description and
protein function information drawn from UniProt and RefProt for best homologs, and other
data.   This is a draft annotation and may be updated.  -- Don Gilbert, 18 July 2008

Augustus acyr-augmap5c gene prediction statistics
    N   Group
33713  gene models   
  40594  transcript models
   4866  genes with alternate transcript

24736  genes with aphid cDNA or protein match
   8877  genes with aphid cDNA
  23799  genes with protein match (e value <0.0001) 
  15554  with tribolium, nasonia or daphnia gene match

29887  genes with Gnomon model
  16246  identical or substantially same
  13641  differ from Gnomon model (criteria is strict ; many of these differ by 1 exon or parts of exons)
   3826  no Gnomon model