-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1173

-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 2002, 2052
Sorry, prediction snap_scaffold_1173-snap.1-T1 fails validation.
(TCC)	 AG	2002-2052	GT	TTG
(ATG)	 AG	2527-2679	TG	GAT
-recovered snap_scaffold_1173-snap.1-T1, terminal, 2527, 2679
-recovered snap_scaffold_1173-snap.1-T1, internal, 2002, 2052
Couldn't classify 9, 36
Couldn't classify 2338, 2350
Sorry, prediction GeneMark_model.108992_t fails validation.
(AGA)	 AG	9-36	GT	GAG
(AGA)	 AG	64-120	GT	GAG
(AGA)	 AG	149-160	GC	AGG
(AGA)	 AG	191-199	GT	GTG
(AAG)	 AG	227-238	GT	GGG
(GGA)	 AG	262-318	GT	AGG
(AGA)	 AG	618-650	GT	GAG
(ATG)	 AG	671-745	GT	AGG
(AGA)	 AG	776-848	GT	AGG
(TCC)	 AG	1844-1856	GT	TTG
(TCC)	 AG	1888-1970	GT	TTG
(TCC)	 AG	2002-2052	GT	TTG
(TCC)	 AG	2084-2096	GT	TTG
(TCC)	 AG	2129-2138	GT	TTG
(ACA)	 AG	2187-2226	GT	TTG
(TCC)	 AG	2258-2270	GT	TTG
(TCC)	 AG	2338-2350	GT	TTG
add_exon() Sorry, GeneMark_model.108992_t 671-745-initial-1 is invalid.
-recovered GeneMark_model.108992_t, initial, 671, 745
-recovered GeneMark_model.108992_t, terminal, 149, 160
-recovered GeneMark_model.108992_t, internal, 9, 36
-recovered GeneMark_model.108992_t, internal, 64, 120
-recovered GeneMark_model.108992_t, internal, 149, 160
-recovered GeneMark_model.108992_t, internal, 191, 199
-recovered GeneMark_model.108992_t, internal, 227, 238
-recovered GeneMark_model.108992_t, internal, 262, 318
-recovered GeneMark_model.108992_t, internal, 618, 650
-recovered GeneMark_model.108992_t, internal, 671, 745
-recovered GeneMark_model.108992_t, internal, 776, 848
-recovered GeneMark_model.108992_t, internal, 1844, 1856
-recovered GeneMark_model.108992_t, internal, 1888, 1970
-recovered GeneMark_model.108992_t, internal, 2002, 2052
-recovered GeneMark_model.108992_t, internal, 2084, 2096
-recovered GeneMark_model.108992_t, internal, 2129, 2138
-recovered GeneMark_model.108992_t, internal, 2187, 2226
-recovered GeneMark_model.108992_t, internal, 2258, 2270
-recovered GeneMark_model.108992_t, internal, 2338, 2350

-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: -)Valid prediction for GlimmerHMM_glimmerT_62509-T1

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

-building trellis in range 1 - 3062
-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 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support