-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_407

-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 3995, 4120
Sorry, prediction GlimmerHMM_glimmerT_61808-T1 fails validation.
(ATG)	 AG	2464-2556	GT	GAG
(GGC)	 AG	3995-4120	GT	AGG
-recovered GlimmerHMM_glimmerT_61808-T1, initial, 2464, 2556
-recovered GlimmerHMM_glimmerT_61808-T1, internal, 2464, 2556
-recovered GlimmerHMM_glimmerT_61808-T1, internal, 3995, 4120
Couldn't classify 6497, 6566
Sorry, prediction snap_scaffold_407-snap.2-T1 fails validation.
(ATG)	 AT	5870-5899	GT	TGG
(CTG)	 AG	6141-6228	GT	GAG
(AAC)	 AG	6497-6566	GT	ACG
-recovered snap_scaffold_407-snap.2-T1, initial, 5870, 5899
add_exon() Sorry, snap_scaffold_407-snap.2-T1 6141-6228-terminal-3 is invalid.
-recovered snap_scaffold_407-snap.2-T1, terminal, 6141, 6228
-recovered snap_scaffold_407-snap.2-T1, internal, 6141, 6228
-recovered snap_scaffold_407-snap.2-T1, internal, 6497, 6566
Valid prediction for Augustus_model.g41080.t1
Valid prediction for GeneMark_model.107553_t
Valid prediction for snap_scaffold_407-snap.1-T1

-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: -)Couldn't classify 1486, 1497
Sorry, prediction GeneMark_model.107554_t fails validation.
(TCC)	 AG	1486-1497	GT	CTG
(ACC)	 AG	1757-1925	GT	AGG
(GGA)	 AG	2481-2492	GC	AGG
(GGA)	 AG	2525-2596	GT	GAG
(GGA)	 AG	2629-2656	AG	AGA
-recovered GeneMark_model.107554_t, terminal, 2629, 2656
-recovered GeneMark_model.107554_t, internal, 1486, 1497
-recovered GeneMark_model.107554_t, internal, 1757, 1925
-recovered GeneMark_model.107554_t, internal, 2481, 2492
-recovered GeneMark_model.107554_t, internal, 2525, 2596

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

-building trellis in range 1 - 7227
-exon list size: 27


building trellis

3.4    
6.9    
10.3    
13.8    
17.2    
20.7    
24.1    
27.6    
31.0    
34.5    
37.9    
41.4    
44.8    
48.3    
51.7    
55.2    
58.6    
62.1    
65.5    
69.0    
72.4    
75.9    
79.3    
82.8    
86.2    
89.7    
93.1    
96.6    
-found 2 predictions from path traversal
GOT 5prime partial gene.
GOT 5prime partial gene.

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