-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1057

-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 13, 106
Sorry, prediction GeneMark_model.108820_t fails validation.
(GGG)	 AG	13-106	GT	GGG
(AGA)	 AG	455-466	GT	AAG
(AGA)	 AG	834-902	GT	GAG
(AGA)	 AG	924-1004	GT	GAG
(AAA)	 AG	1026-1065	AG	AGA
-recovered GeneMark_model.108820_t, terminal, 1026, 1065
-recovered GeneMark_model.108820_t, internal, 13, 106
-recovered GeneMark_model.108820_t, internal, 455, 466
-recovered GeneMark_model.108820_t, internal, 834, 902
-recovered GeneMark_model.108820_t, internal, 924, 1004
Couldn't classify 1904, 2109
Sorry, prediction Augustus_model.g41499.t1 fails validation.
(AGC)	 AG	1904-2109	GT	CTG
(ATC)	 AG	2930-3039	CC	AAC
-recovered Augustus_model.g41499.t1, terminal, 2930, 3039
-recovered Augustus_model.g41499.t1, internal, 1904, 2109

-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 33, 75
Sorry, prediction GeneMark_model.108821_t fails validation.
(AGA)	 AG	33-75	GT	TGG
(GAA)	 AG	104-138	GT	AGG
(GAG)	 AG	208-252	GT	CAG
(GGT)	 AG	1238-1357	GT	CGG
(GGG)	 AG	1406-1492	GT	ATG
(AAG)	 AG	1910-1945	GT	CCG
(AGA)	 AG	2033-2038	GT	ATG
(AAA)	 AG	2059-2082	GT	GGG
(TCT)	 AG	2174-2342	TT	GAT
-recovered GeneMark_model.108821_t, terminal, 2174, 2342
-recovered GeneMark_model.108821_t, internal, 33, 75
-recovered GeneMark_model.108821_t, internal, 104, 138
-recovered GeneMark_model.108821_t, internal, 208, 252
-recovered GeneMark_model.108821_t, internal, 1238, 1357
-recovered GeneMark_model.108821_t, internal, 1406, 1492
-recovered GeneMark_model.108821_t, internal, 1910, 1945
-recovered GeneMark_model.108821_t, internal, 2033, 2038
-recovered GeneMark_model.108821_t, internal, 2059, 2082
Couldn't classify 1291, 1492
Couldn't classify 2174, 2336
Sorry, prediction snap_scaffold_1057-snap.1-T1 fails validation.
(AAA)	 AG	1291-1492	GT	ATG
(TCT)	 AG	2174-2336	GT	TTG
-recovered snap_scaffold_1057-snap.1-T1, internal, 1291, 1492
-recovered snap_scaffold_1057-snap.1-T1, internal, 2174, 2336

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

-building trellis in range 1 - 3434
-exon list size: 36


building trellis

2.6    
5.3    
7.9    
10.5    
13.2    
15.8    
18.4    
21.1    
23.7    
26.3    
28.9    
31.6    
34.2    
36.8    
39.5    
42.1    
44.7    
47.4    
50.0    
52.6    
55.3    
57.9    
60.5    
63.2    
65.8    
68.4    
71.1    
73.7    
76.3    
78.9    
81.6    
84.2    
86.8    
89.5    
92.1    
94.7    
97.4    
-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