-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1520

-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 249, 302
Sorry, prediction GeneMark_model.109427_t fails validation.
(AAA)	 AG	249-302	GT	GTG
(AGA)	 AG	901-954	GT	CAG
(CAA)	 AG	977-1003	GC	GAG
(GGA)	 AG	1027-1041	GC	GAG
(AAG)	 AG	1065-1073	GT	CAG
(CAA)	 AG	1119-1169	GC	AAG
(CAA)	 AG	1195-1200	GT	CAG
(CAA)	 AG	1223-1267	GC	AAG
(AGT)	 AG	1291-1312	GC	AAG
-recovered GeneMark_model.109427_t, terminal, 1291, 1312
-recovered GeneMark_model.109427_t, internal, 249, 302
-recovered GeneMark_model.109427_t, internal, 901, 954
-recovered GeneMark_model.109427_t, internal, 977, 1003
-recovered GeneMark_model.109427_t, internal, 1027, 1041
-recovered GeneMark_model.109427_t, internal, 1065, 1073
-recovered GeneMark_model.109427_t, internal, 1119, 1169
-recovered GeneMark_model.109427_t, internal, 1195, 1200
-recovered GeneMark_model.109427_t, internal, 1223, 1267
-recovered GeneMark_model.109427_t, internal, 1291, 1312

-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 226, 276
Sorry, prediction GeneMark_model.109428_t fails validation.
(GGA)	 AG	226-276	GT	GGG
(AGG)	 AG	297-302	GT	GGG
(GCT)	 AG	327-342	GT	AGG
(CAG)	 AG	670-903	TC	GAT
-recovered GeneMark_model.109428_t, terminal, 670, 903
-recovered GeneMark_model.109428_t, internal, 226, 276
-recovered GeneMark_model.109428_t, internal, 297, 302
-recovered GeneMark_model.109428_t, internal, 327, 342
Valid prediction for GlimmerHMM_glimmerT_62690-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62690-T1 645-931-terminal-1 is invalid.
Couldn't classify 645, 759
Couldn't classify 2128, 2235
Sorry, prediction snap_scaffold_1520-snap.1-T1 fails validation.
(TCA)	 AG	645-759	GT	CGG
(GAG)	 AG	2128-2235	GT	TGG
-recovered snap_scaffold_1520-snap.1-T1, internal, 645, 759
-recovered snap_scaffold_1520-snap.1-T1, internal, 2128, 2235

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

-building trellis in range 1 - 2281
-exon list size: 37


building trellis

2.6    
5.1    
7.7    
10.3    
12.8    
15.4    
17.9    
20.5    
23.1    
25.6    
28.2    
30.8    
33.3    
35.9    
38.5    
41.0    
43.6    
46.2    
48.7    
51.3    
53.8    
56.4    
59.0    
61.5    
64.1    
66.7    
69.2    
71.8    
74.4    
76.9    
79.5    
82.1    
84.6    
87.2    
89.7    
92.3    
94.9    
97.4    
-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