-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1004

-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 125, 321
Sorry, prediction Augustus_model.g40306.t1 fails validation.
(GTG)	 AG	125-321	GT	AGG
(GCA)	 AG	621-780	GT	TGG
(GCT)	 AG	1347-1502	GT	AGG
(GCC)	 AG	1875-1904	GT	CTG
(GAT)	 AG	2821-2991	AT	GAA
-recovered Augustus_model.g40306.t1, terminal, 2821, 2991
-recovered Augustus_model.g40306.t1, internal, 125, 321
-recovered Augustus_model.g40306.t1, internal, 621, 780
-recovered Augustus_model.g40306.t1, internal, 1347, 1502
-recovered Augustus_model.g40306.t1, internal, 1875, 1904
Couldn't classify 125, 321
Couldn't classify 1875, 2042
Sorry, prediction pasa_asmbl_5225.p1 fails validation.
(GTG)	 AG	125-321	GT	AGG
(GCA)	 AG	621-780	GT	TGG
(GCT)	 AG	1347-1502	GT	AGG
(GCC)	 AG	1875-2042	NN	NNN
-recovered pasa_asmbl_5225.p1, internal, 125, 321
-recovered pasa_asmbl_5225.p1, internal, 621, 780
-recovered pasa_asmbl_5225.p1, internal, 1347, 1502
Couldn't classify 125, 321
Sorry, prediction snap_scaffold_1004-snap.1-T1 fails validation.
(GTG)	 AG	125-321	GT	AGG
(GCA)	 AG	621-780	GT	TGG
(GCT)	 AG	1347-1502	GT	AGG
(GCC)	 AG	1875-1935	GT	TGG
(TGA)	 AG	2864-2991	AT	GAA
-recovered snap_scaffold_1004-snap.1-T1, terminal, 2864, 2991
-recovered snap_scaffold_1004-snap.1-T1, internal, 125, 321
-recovered snap_scaffold_1004-snap.1-T1, internal, 621, 780
-recovered snap_scaffold_1004-snap.1-T1, internal, 1347, 1502
-recovered snap_scaffold_1004-snap.1-T1, internal, 1875, 1935
Couldn't classify 2821, 2919
Sorry, prediction GlimmerHMM_glimmerT_60901-T1 fails validation.
(ATG)	 AG	625-780	GT	TGG
(GCT)	 AG	1347-1502	GT	AGG
(GAT)	 AG	2821-2919	GT	GGG
-recovered GlimmerHMM_glimmerT_60901-T1, initial, 625, 780
-recovered GlimmerHMM_glimmerT_60901-T1, internal, 625, 780
-recovered GlimmerHMM_glimmerT_60901-T1, internal, 1347, 1502
-recovered GlimmerHMM_glimmerT_60901-T1, internal, 2821, 2919
Valid prediction for GlimmerHMM_glimmerT_60900-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 3310, 3458
Sorry, prediction snap_scaffold_1004-snap.2-T1 fails validation.
(ATG)	 TG	526-538	GT	GGG
(TGG)	 AG	1639-1733	GT	TGG
(CAG)	 AG	2192-2314	GT	GAG
(CGG)	 AG	2861-3061	GT	ACG
(GCC)	 AG	3310-3458	GT	GGG
-recovered snap_scaffold_1004-snap.2-T1, initial, 526, 538
-recovered snap_scaffold_1004-snap.2-T1, internal, 1639, 1733
-recovered snap_scaffold_1004-snap.2-T1, internal, 2192, 2314
-recovered snap_scaffold_1004-snap.2-T1, internal, 2861, 3061
-recovered snap_scaffold_1004-snap.2-T1, internal, 3310, 3458

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2991, rend_intergenic: 158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 3615
-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 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2991, rend_intergenic: 158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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