-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_688

-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 4943, 4963
Sorry, prediction GeneMark_model.108207_t fails validation.
(ATG)	 AG	4400-4412	GT	GAG
(GAA)	 AG	4435-4522	GT	GAG
(AGG)	 AG	4620-4742	GT	GAG
(AGC)	 AG	4768-4821	GT	GTG
(GGA)	 AG	4943-4963	GT	GGG
-recovered GeneMark_model.108207_t, initial, 4400, 4412
-recovered GeneMark_model.108207_t, internal, 4400, 4412
-recovered GeneMark_model.108207_t, internal, 4435, 4522
-recovered GeneMark_model.108207_t, internal, 4620, 4742
-recovered GeneMark_model.108207_t, internal, 4768, 4821
-recovered GeneMark_model.108207_t, internal, 4943, 4963
Valid prediction for GlimmerHMM_glimmerT_62125-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62125-T1 1917-2083-terminal-1 is invalid.
Valid prediction for GeneMark_model.108203_t
Couldn't classify 573, 587
Sorry, prediction GeneMark_model.108201_t fails validation.
(TGT)	 AG	573-587	GT	GGG
(GGG)	 AG	614-637	GT	GGG
(TTG)	 AG	661-693	GT	GTG
(TGG)	 AG	741-761	GT	GGG
(GGT)	 AG	788-814	GT	GGG
(GGT)	 AG	853-879	GT	GGG
(GGT)	 AG	906-920	GT	GGG
(TGG)	 AG	970-990	GT	GGG
(TGG)	 AG	1025-1039	GT	GGG
(TGC)	 AG	1072-1077	GT	GGG
(GGT)	 AG	1103-1132	GT	GGG
(AGG)	 AG	1164-1169	GT	TGG
(GGG)	 AG	1194-1208	GT	GGG
(AGG)	 AG	1233-1239	GG	GAG
-recovered GeneMark_model.108201_t, terminal, 1233, 1239
-recovered GeneMark_model.108201_t, internal, 573, 587
-recovered GeneMark_model.108201_t, internal, 614, 637
-recovered GeneMark_model.108201_t, internal, 661, 693
-recovered GeneMark_model.108201_t, internal, 741, 761
-recovered GeneMark_model.108201_t, internal, 788, 814
-recovered GeneMark_model.108201_t, internal, 853, 879
-recovered GeneMark_model.108201_t, internal, 906, 920
-recovered GeneMark_model.108201_t, internal, 970, 990
-recovered GeneMark_model.108201_t, internal, 1025, 1039
-recovered GeneMark_model.108201_t, internal, 1072, 1077
-recovered GeneMark_model.108201_t, internal, 1103, 1132
-recovered GeneMark_model.108201_t, internal, 1164, 1169
-recovered GeneMark_model.108201_t, internal, 1194, 1208

-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 snap_scaffold_688-snap.1-T1
Valid prediction for GeneMark_model.108206_t
Valid prediction for GeneMark_model.108204_t
Valid prediction for GeneMark_model.108202_t
Valid prediction for GeneMark_model.108205_t

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

-building trellis in range 1 - 4994
-exon list size: 64


building trellis

1.5    
3.0    
4.5    
6.1    
7.6    
9.1    
10.6    
12.1    
13.6    
15.2    
16.7    
18.2    
19.7    
21.2    
22.7    
24.2    
25.8    
27.3    
28.8    
30.3    
31.8    
33.3    
34.8    
36.4    
37.9    
39.4    
40.9    
42.4    
43.9    
45.5    
47.0    
48.5    
50.0    
51.5    
53.0    
54.5    
56.1    
57.6    
59.1    
60.6    
62.1    
63.6    
65.2    
66.7    
68.2    
69.7    
71.2    
72.7    
74.2    
75.8    
77.3    
78.8    
80.3    
81.8    
83.3    
84.8    
86.4    
87.9    
89.4    
90.9    
92.4    
93.9    
95.5    
97.0    
98.5    
-found 1 predictions from path traversal

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