-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_853

-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: +)
-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 63, 74
Sorry, prediction GeneMark_model.108493_t fails validation.
(GGT)	 AG	63-74	GT	GTG
(GGT)	 AG	105-128	GT	GGG
(GAA)	 AG	154-162	GT	GTG
(GGT)	 AG	189-212	GT	GGG
(TGT)	 AG	242-271	GT	GGG
(GGG)	 AG	313-343	GT	ATG
(GCA)	 AG	427-461	GT	GGG
(GGT)	 AG	492-530	GT	GGG
(GCA)	 AG	562-573	GT	TGG
(GGG)	 AG	602-609	GT	TGG
(GGG)	 AG	639-654	GT	GGG
(GGA)	 AG	676-685	GT	GGG
(GAC)	 AG	1515-1861	GT	GGG
(AGT)	 AG	1903-1935	GT	GGG
(GAC)	 AG	1957-2019	GT	GGG
(GGC)	 AG	2262-2399	GT	AGG
(GTT)	 AG	2871-2892	GT	TGG
(CTG)	 AG	3025-3065	GT	GCG
(AGC)	 AG	3220-3232	GA	AGG
-recovered GeneMark_model.108493_t, terminal, 3220, 3232
-recovered GeneMark_model.108493_t, internal, 63, 74
-recovered GeneMark_model.108493_t, internal, 105, 128
-recovered GeneMark_model.108493_t, internal, 154, 162
-recovered GeneMark_model.108493_t, internal, 189, 212
-recovered GeneMark_model.108493_t, internal, 242, 271
-recovered GeneMark_model.108493_t, internal, 313, 343
-recovered GeneMark_model.108493_t, internal, 427, 461
-recovered GeneMark_model.108493_t, internal, 492, 530
-recovered GeneMark_model.108493_t, internal, 562, 573
-recovered GeneMark_model.108493_t, internal, 602, 609
-recovered GeneMark_model.108493_t, internal, 639, 654
-recovered GeneMark_model.108493_t, internal, 676, 685
-recovered GeneMark_model.108493_t, internal, 1515, 1861
-recovered GeneMark_model.108493_t, internal, 1903, 1935
-recovered GeneMark_model.108493_t, internal, 1957, 2019
-recovered GeneMark_model.108493_t, internal, 2262, 2399
-recovered GeneMark_model.108493_t, internal, 2871, 2892
-recovered GeneMark_model.108493_t, internal, 3025, 3065
Valid prediction for GlimmerHMM_glimmerT_62291-T1
Couldn't classify 1540, 1915
Sorry, prediction snap_scaffold_853-snap.1-T1 fails validation.
(ATC)	 AG	1540-1915	GT	AGG
(ATG)	 AG	2299-2497	GT	CTG
(TGA)	 AG	2801-2841	GT	GGG
(CTG)	 AG	3025-3135	AC	AGA
-recovered snap_scaffold_853-snap.1-T1, initial, 2299, 2497
-recovered snap_scaffold_853-snap.1-T1, terminal, 3025, 3135
-recovered snap_scaffold_853-snap.1-T1, internal, 1540, 1915
-recovered snap_scaffold_853-snap.1-T1, internal, 2299, 2497
-recovered snap_scaffold_853-snap.1-T1, internal, 2801, 2841

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

-building trellis in range 1 - 4212
-exon list size: 56


building trellis

1.7    
3.4    
5.2    
6.9    
8.6    
10.3    
12.1    
13.8    
15.5    
17.2    
19.0    
20.7    
22.4    
24.1    
25.9    
27.6    
29.3    
31.0    
32.8    
34.5    
36.2    
37.9    
39.7    
41.4    
43.1    
44.8    
46.6    
48.3    
50.0    
51.7    
53.4    
55.2    
56.9    
58.6    
60.3    
62.1    
63.8    
65.5    
67.2    
69.0    
70.7    
72.4    
74.1    
75.9    
77.6    
79.3    
81.0    
82.8    
84.5    
86.2    
87.9    
89.7    
91.4    
93.1    
94.8    
96.6    
98.3    
-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