-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_857

-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 GeneMark_model.108500_t

-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 3887, 3912
Sorry, prediction GeneMark_model.108499_t fails validation.
(ATG)	 AC	3551-3600	GT	AGG
(GGG)	 AG	3623-3781	GT	GAG
(GGA)	 AG	3811-3855	GT	AGG
(AAA)	 AG	3887-3912	GT	GAG
-recovered GeneMark_model.108499_t, initial, 3551, 3600
-recovered GeneMark_model.108499_t, internal, 3623, 3781
-recovered GeneMark_model.108499_t, internal, 3811, 3855
-recovered GeneMark_model.108499_t, internal, 3887, 3912
Couldn't classify 33, 197
Couldn't classify 4037, 4105
Sorry, prediction snap_scaffold_857-snap.1-T1 fails validation.
(ACC)	 AG	33-197	GT	GAG
(TGT)	 AG	1003-1224	GT	AGG
(CGT)	 AG	4037-4105	GT	AGG
-recovered snap_scaffold_857-snap.1-T1, internal, 33, 197
-recovered snap_scaffold_857-snap.1-T1, internal, 1003, 1224
-recovered snap_scaffold_857-snap.1-T1, internal, 4037, 4105
Couldn't classify 33, 197
Sorry, prediction GlimmerHMM_glimmerT_62294-T1 fails validation.
(ACC)	 AG	33-197	GT	GAG
(TGT)	 AG	1003-1288	GT	AGG
(CAG)	 AG	3146-3237	AT	AAA
-recovered GlimmerHMM_glimmerT_62294-T1, terminal, 3146, 3237
-recovered GlimmerHMM_glimmerT_62294-T1, internal, 33, 197
-recovered GlimmerHMM_glimmerT_62294-T1, internal, 1003, 1288
Couldn't classify 1, 155
Sorry, prediction Augustus_model.g41404.t1 fails validation.
(TGA)	 GG	1-155	GT	ACG
(CCG)	 AG	448-570	GT	AGG
(TGT)	 AG	1003-1224	GT	AGG
(GTT)	 AG	1804-1833	GG	GAG
-recovered Augustus_model.g41404.t1, terminal, 1804, 1833
-recovered Augustus_model.g41404.t1, internal, 448, 570
-recovered Augustus_model.g41404.t1, internal, 1003, 1224
Couldn't classify 33, 112
Sorry, prediction GeneMark_model.108501_t fails validation.
(ACC)	 AG	33-112	GT	CTG
(AGA)	 AG	136-159	GT	GAG
(CGC)	 AG	189-197	GT	GAG
(AGC)	 AG	223-243	GC	GAG
(AGC)	 AG	265-333	GT	GAG
(AGA)	 AG	362-773	GT	AGG
(TGT)	 AG	1003-1224	GT	AGG
(GTT)	 AG	1289-1303	CC	AAC
-recovered GeneMark_model.108501_t, terminal, 136, 159
-recovered GeneMark_model.108501_t, terminal, 1289, 1303
-recovered GeneMark_model.108501_t, internal, 33, 112
-recovered GeneMark_model.108501_t, internal, 136, 159
-recovered GeneMark_model.108501_t, internal, 189, 197
-recovered GeneMark_model.108501_t, internal, 223, 243
-recovered GeneMark_model.108501_t, internal, 265, 333
-recovered GeneMark_model.108501_t, internal, 362, 773
-recovered GeneMark_model.108501_t, internal, 1003, 1224

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

-building trellis in range 1 - 4190
-exon list size: 44


building trellis

2.2    
4.3    
6.5    
8.7    
10.9    
13.0    
15.2    
17.4    
19.6    
21.7    
23.9    
26.1    
28.3    
30.4    
32.6    
34.8    
37.0    
39.1    
41.3    
43.5    
45.7    
47.8    
50.0    
52.2    
54.3    
56.5    
58.7    
60.9    
63.0    
65.2    
67.4    
69.6    
71.7    
73.9    
76.1    
78.3    
80.4    
82.6    
84.8    
87.0    
89.1    
91.3    
93.5    
95.7    
97.8    
-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