-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_638

-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 10, 21
Sorry, prediction GeneMark_model.108101_t fails validation.
(GGG)	 AG	10-21	GC	GAG
(CAG)	 AG	45-98	GT	GGG
(GCT)	 AG	1404-1422	GT	GGG
(GAC)	 AG	1606-1851	CT	GAC
-recovered GeneMark_model.108101_t, terminal, 1606, 1851
-recovered GeneMark_model.108101_t, internal, 10, 21
-recovered GeneMark_model.108101_t, internal, 45, 98
-recovered GeneMark_model.108101_t, internal, 1404, 1422
Valid prediction for GlimmerHMM_glimmerT_62072-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62072-T1 2520-2745-terminal-1 is invalid.

-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 40, 91
Sorry, prediction GeneMark_model.108102_t fails validation.
(GCT)	 AG	40-91	GT	GTG
(GAC)	 AG	598-615	GT	CAG
(TAC)	 AG	637-650	GT	CAG
(AGT)	 AG	1254-1280	GT	GAG
(CAG)	 AG	1315-1320	GT	GAG
(AGA)	 AG	2639-2850	GT	CTG
(TCG)	 AG	2890-2936	CC	AGC
-recovered GeneMark_model.108102_t, terminal, 2890, 2936
-recovered GeneMark_model.108102_t, internal, 40, 91
-recovered GeneMark_model.108102_t, internal, 598, 615
-recovered GeneMark_model.108102_t, internal, 637, 650
-recovered GeneMark_model.108102_t, internal, 1254, 1280
-recovered GeneMark_model.108102_t, internal, 1315, 1320
-recovered GeneMark_model.108102_t, internal, 2639, 2850
Couldn't classify 1647, 2229
Couldn't classify 2663, 2850
Sorry, prediction snap_scaffold_638-snap.1-T1 fails validation.
(AAC)	 AG	1647-2229	GT	AGG
(AGA)	 AG	2663-2850	GT	CTG
-recovered snap_scaffold_638-snap.1-T1, internal, 1647, 2229
-recovered snap_scaffold_638-snap.1-T1, internal, 2663, 2850

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

-building trellis in range 1 - 5238
-exon list size: 28


building trellis

3.3    
6.7    
10.0    
13.3    
16.7    
20.0    
23.3    
26.7    
30.0    
33.3    
36.7    
40.0    
43.3    
46.7    
50.0    
53.3    
56.7    
60.0    
63.3    
66.7    
70.0    
73.3    
76.7    
80.0    
83.3    
86.7    
90.0    
93.3    
96.7    
-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