-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2065

-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 98, 132
Couldn't classify 1415, 1607
Sorry, prediction GeneMark_model.109998_t fails validation.
(CAC)	 AG	98-132	GT	GGG
(GTA)	 AG	221-425	GT	AGG
(CGT)	 AG	485-643	GT	CGG
(AGA)	 AG	677-729	GT	GGG
(TGG)	 AG	755-821	GT	AGG
(AAG)	 AG	862-956	GT	AGG
(AGA)	 AG	981-1016	GT	GGG
(AGA)	 AG	1041-1058	GT	AGG
(AGA)	 AG	1083-1118	GT	AGG
(AGG)	 AG	1143-1148	GT	AGG
(AGA)	 AG	1173-1208	GT	AGG
(AGG)	 AG	1233-1238	GT	AGG
(GGG)	 AG	1259-1267	GT	AGG
(TCT)	 AG	1415-1607	GT	GGG
-recovered GeneMark_model.109998_t, internal, 98, 132
-recovered GeneMark_model.109998_t, internal, 221, 425
-recovered GeneMark_model.109998_t, internal, 485, 643
-recovered GeneMark_model.109998_t, internal, 677, 729
-recovered GeneMark_model.109998_t, internal, 755, 821
-recovered GeneMark_model.109998_t, internal, 862, 956
-recovered GeneMark_model.109998_t, internal, 981, 1016
-recovered GeneMark_model.109998_t, internal, 1041, 1058
-recovered GeneMark_model.109998_t, internal, 1083, 1118
-recovered GeneMark_model.109998_t, internal, 1143, 1148
-recovered GeneMark_model.109998_t, internal, 1173, 1208
-recovered GeneMark_model.109998_t, internal, 1233, 1238
-recovered GeneMark_model.109998_t, internal, 1259, 1267
-recovered GeneMark_model.109998_t, internal, 1415, 1607

-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 39, 196
Couldn't classify 1431, 1567
Sorry, prediction snap_scaffold_2065-snap.1-T1 fails validation.
(TCC)	 AG	39-196	GT	CAG
(AAG)	 AG	944-1126	GT	CGG
(GAC)	 AG	1208-1426	GT	TGG
(GTA)	 AG	1431-1567	GT	TAG
-recovered snap_scaffold_2065-snap.1-T1, internal, 39, 196
-recovered snap_scaffold_2065-snap.1-T1, internal, 944, 1126
-recovered snap_scaffold_2065-snap.1-T1, internal, 1208, 1426
-recovered snap_scaffold_2065-snap.1-T1, internal, 1431, 1567
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 899, 1126
Couldn't classify 1208, 1426
Sorry, prediction Augustus_model.g41939.t1 fails validation.
(CCC)	 AG	899-1126	GT	CGG
(GAC)	 AG	1208-1426	GT	TGG
-recovered Augustus_model.g41939.t1, internal, 899, 1126
-recovered Augustus_model.g41939.t1, internal, 1208, 1426
Couldn't classify 87, 196
Sorry, prediction GlimmerHMM_glimmerT_62959-T1 fails validation.
(CCT)	 AG	87-196	GT	CAG
(AAG)	 AG	944-1126	GT	CGG
(GAC)	 AG	1208-1482	CC	GAC
-recovered GlimmerHMM_glimmerT_62959-T1, terminal, 1208, 1482
-recovered GlimmerHMM_glimmerT_62959-T1, internal, 87, 196
-recovered GlimmerHMM_glimmerT_62959-T1, internal, 944, 1126

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

-building trellis in range 1 - 1615
-exon list size: 42


building trellis

2.3    
4.5    
6.8    
9.1    
11.4    
13.6    
15.9    
18.2    
20.5    
22.7    
25.0    
27.3    
29.5    
31.8    
34.1    
36.4    
38.6    
40.9    
43.2    
45.5    
47.7    
50.0    
52.3    
54.5    
56.8    
59.1    
61.4    
63.6    
65.9    
68.2    
70.5    
72.7    
75.0    
77.3    
79.5    
81.8    
84.1    
86.4    
88.6    
90.9    
93.2    
95.5    
97.7    
-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