-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1108

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Couldn't classify 2811, 2980
Sorry, prediction snap_scaffold_1108-snap.1-T1 fails validation.
(ATG)	 AG	652-780	GT	AGG
(GAG)	 AG	1408-2083	GT	AGG
(GTC)	 AG	2432-2612	GT	AGG
(CTG)	 AG	2811-2980	GT	GAG
add_exon() Sorry, snap_scaffold_1108-snap.1-T1 652-780-initial-1 is invalid.
-recovered snap_scaffold_1108-snap.1-T1, initial, 652, 780
-recovered snap_scaffold_1108-snap.1-T1, internal, 652, 780
-recovered snap_scaffold_1108-snap.1-T1, internal, 1408, 2083
-recovered snap_scaffold_1108-snap.1-T1, internal, 2432, 2612
-recovered snap_scaffold_1108-snap.1-T1, internal, 2811, 2980
Couldn't classify 1854, 2083
Couldn't classify 2432, 2555
Sorry, prediction pasa_asmbl_7389.p1 fails validation.
(AGC)	 CC	1854-2083	GT	AGG
(GTC)	 AG	2432-2555	GC	AGG
-recovered pasa_asmbl_7389.p1, internal, 2432, 2555
Valid prediction for GlimmerHMM_glimmerT_60969-T1
Valid prediction for Augustus_model.g40357.t1
add_exon() Sorry, Augustus_model.g40357.t1 652-780-initial-1 is invalid.
add_exon() Sorry, Augustus_model.g40357.t1 1408-2083-internal-1 is invalid.
add_exon() Sorry, Augustus_model.g40357.t1 2432-2612-internal-2 is invalid.
add_exon() Sorry, Augustus_model.g40357.t1 2811-2984-terminal-3 is invalid.

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)
-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 3269
-exon list size: 11


building trellis

7.7    
15.4    
23.1    
30.8    
38.5    
46.2    
53.8    
61.5    
69.2    
76.9    
84.6    
92.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support