-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_769

-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, 27
Sorry, prediction GeneMark_model.108343_t fails validation.
(GAA)	 AG	10-27	GT	GAG
(TGA)	 AG	50-67	GT	GAG
(GGA)	 AG	90-140	GT	ATG
(AGA)	 AG	381-422	GT	GTG
(ATG)	 AG	446-469	GT	GGG
(GGG)	 AG	504-566	GT	GGG
(GGG)	 AG	601-621	GT	GGG
(AGG)	 AG	649-657	GT	GGG
(GGA)	 AG	680-694	GT	GGG
(GGA)	 AG	718-729	GT	GGG
(AGG)	 AG	757-765	GT	GGG
(GAG)	 AG	789-813	GT	AGG
(GGG)	 AG	839-870	GT	AGG
(GGA)	 AG	902-913	GT	GGG
(AGA)	 AG	937-942	GT	AGG
(GGA)	 AG	965-976	GT	GGG
(AGG)	 AG	1003-1053	GT	GGG
(GGG)	 AG	1076-1090	GT	GGG
(AGA)	 AG	1116-1127	GT	GGG
(GGG)	 AG	1157-1201	GT	GAG
(CGT)	 AG	1227-1289	GT	AGG
(AGG)	 AG	2781-2813	GT	AGG
(AAG)	 AG	2842-2925	GT	AAG
(GAT)	 AG	2967-3017	GT	AAG
(GTG)	 AG	3098-3215	AT	AGA
-recovered GeneMark_model.108343_t, initial, 446, 469
-recovered GeneMark_model.108343_t, terminal, 1157, 1201
add_exon() Sorry, GeneMark_model.108343_t 1227-1289-terminal-1 is invalid.
-recovered GeneMark_model.108343_t, terminal, 1227, 1289
-recovered GeneMark_model.108343_t, terminal, 3098, 3215
-recovered GeneMark_model.108343_t, internal, 10, 27
-recovered GeneMark_model.108343_t, internal, 50, 67
-recovered GeneMark_model.108343_t, internal, 90, 140
-recovered GeneMark_model.108343_t, internal, 381, 422
-recovered GeneMark_model.108343_t, internal, 446, 469
-recovered GeneMark_model.108343_t, internal, 504, 566
-recovered GeneMark_model.108343_t, internal, 601, 621
-recovered GeneMark_model.108343_t, internal, 649, 657
-recovered GeneMark_model.108343_t, internal, 680, 694
-recovered GeneMark_model.108343_t, internal, 718, 729
-recovered GeneMark_model.108343_t, internal, 757, 765
-recovered GeneMark_model.108343_t, internal, 789, 813
-recovered GeneMark_model.108343_t, internal, 839, 870
-recovered GeneMark_model.108343_t, internal, 902, 913
-recovered GeneMark_model.108343_t, internal, 937, 942
-recovered GeneMark_model.108343_t, internal, 965, 976
-recovered GeneMark_model.108343_t, internal, 1003, 1053
-recovered GeneMark_model.108343_t, internal, 1076, 1090
-recovered GeneMark_model.108343_t, internal, 1116, 1127
-recovered GeneMark_model.108343_t, internal, 1157, 1201
-recovered GeneMark_model.108343_t, internal, 1227, 1289
-recovered GeneMark_model.108343_t, internal, 2781, 2813
-recovered GeneMark_model.108343_t, internal, 2842, 2925
-recovered GeneMark_model.108343_t, internal, 2967, 3017
Valid prediction for GlimmerHMM_glimmerT_62214-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62214-T1 2779-2948-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 103, 123
Sorry, prediction GeneMark_model.108344_t fails validation.
(ACC)	 AG	103-123	GT	CTG
(GAG)	 AG	149-391	GT	ACG
(TAA)	 AG	464-512	GA	AGG
-recovered GeneMark_model.108344_t, terminal, 464, 512
-recovered GeneMark_model.108344_t, internal, 103, 123
-recovered GeneMark_model.108344_t, internal, 149, 391
Couldn't classify 201, 462
Sorry, prediction snap_scaffold_769-snap.1-T1 fails validation.
(AGG)	 AG	201-462	GT	GAG
-recovered snap_scaffold_769-snap.1-T1, internal, 201, 462

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

-building trellis in range 1 - 4582
-exon list size: 62


building trellis

1.6    
3.1    
4.7    
6.2    
7.8    
9.4    
10.9    
12.5    
14.1    
15.6    
17.2    
18.8    
20.3    
21.9    
23.4    
25.0    
26.6    
28.1    
29.7    
31.2    
32.8    
34.4    
35.9    
37.5    
39.1    
40.6    
42.2    
43.8    
45.3    
46.9    
48.4    
50.0    
51.6    
53.1    
54.7    
56.2    
57.8    
59.4    
60.9    
62.5    
64.1    
65.6    
67.2    
68.8    
70.3    
71.9    
73.4    
75.0    
76.6    
78.1    
79.7    
81.2    
82.8    
84.4    
85.9    
87.5    
89.1    
90.6    
92.2    
93.8    
95.3    
96.9    
98.4    
-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