-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_780

-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: +)Valid prediction for snap_scaffold_780-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_62228-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: -)Valid prediction for Augustus_model.g41366.t1
Valid prediction for snap_scaffold_780-snap.2-T1
Valid prediction for snap_scaffold_780-snap.1-T1
Couldn't classify 577, 676
Sorry, prediction GeneMark_model.108370_t fails validation.
(GTA)	 AG	577-676	GC	TGG
(GAG)	 AG	717-883	GT	GCG
(TGG)	 AG	917-1012	GT	GCG
(ACC)	 AG	1047-1052	GT	GGG
(GGT)	 AG	1088-1831	GT	ACG
(GCG)	 AG	1850-2122	GT	GTG
(GAC)	 AG	2167-2305	GC	AAG
-recovered GeneMark_model.108370_t, terminal, 2167, 2305
-recovered GeneMark_model.108370_t, internal, 577, 676
-recovered GeneMark_model.108370_t, internal, 717, 883
-recovered GeneMark_model.108370_t, internal, 917, 1012
-recovered GeneMark_model.108370_t, internal, 1047, 1052
-recovered GeneMark_model.108370_t, internal, 1088, 1831
-recovered GeneMark_model.108370_t, internal, 1850, 2122
-recovered GeneMark_model.108370_t, internal, 2167, 2305
Couldn't classify 685, 883
Sorry, prediction Augustus_model.g41367.t1 fails validation.
(GAA)	 AG	685-883	GT	GCG
(AAC)	 AG	1226-1835	AG	AAA
-recovered Augustus_model.g41367.t1, terminal, 1226, 1835
-recovered Augustus_model.g41367.t1, internal, 685, 883
Valid prediction for GlimmerHMM_glimmerT_62226-T1
Valid prediction for Augustus_model.g41365.t1
Couldn't classify 4017, 4051
Sorry, prediction GeneMark_model.108369_t fails validation.
(ATG)	 AG	3220-3382	GT	CGG
(GAG)	 AG	4017-4051	GT	AGG
-recovered GeneMark_model.108369_t, initial, 3220, 3382
-recovered GeneMark_model.108369_t, internal, 3220, 3382
-recovered GeneMark_model.108369_t, internal, 4017, 4051
Valid prediction for GlimmerHMM_glimmerT_62229-T1
Valid prediction for GlimmerHMM_glimmerT_62227-T1

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

-building trellis in range 1 - 4493
-exon list size: 32


building trellis

2.9    
5.9    
8.8    
11.8    
14.7    
17.6    
20.6    
23.5    
26.5    
29.4    
32.4    
35.3    
38.2    
41.2    
44.1    
47.1    
50.0    
52.9    
55.9    
58.8    
61.8    
64.7    
67.6    
70.6    
73.5    
76.5    
79.4    
82.4    
85.3    
88.2    
91.2    
94.1    
97.1    
-found 4 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 4 predictions persist after filtering for low support