-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1112

-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 578, 731
Couldn't classify 2914, 2922
Sorry, prediction GeneMark_model.108910_t fails validation.
(AGG)	 AG	578-731	GT	AAG
(GGA)	 AG	758-784	GT	AGG
(AAG)	 AG	891-896	GT	CAG
(GGC)	 AG	1191-1379	GT	AGG
(ACC)	 AG	1509-1521	GT	AGG
(CTG)	 AG	2709-2815	GT	GAG
(AGA)	 AG	2850-2888	GC	GAG
(AGA)	 AG	2914-2922	GT	GAG
-recovered GeneMark_model.108910_t, internal, 578, 731
-recovered GeneMark_model.108910_t, internal, 758, 784
-recovered GeneMark_model.108910_t, internal, 891, 896
-recovered GeneMark_model.108910_t, internal, 1191, 1379
-recovered GeneMark_model.108910_t, internal, 1509, 1521
-recovered GeneMark_model.108910_t, internal, 2709, 2815
-recovered GeneMark_model.108910_t, internal, 2850, 2888
-recovered GeneMark_model.108910_t, internal, 2914, 2922

-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 420, 590
Sorry, prediction GlimmerHMM_glimmerT_62473-T1 fails validation.
(CAG)	 AG	420-590	GT	TGG
(TAG)	 AG	1182-1267	GT	AGG
(ACT)	 AG	1886-1909	GG	GAG
-recovered GlimmerHMM_glimmerT_62473-T1, terminal, 1886, 1909
-recovered GlimmerHMM_glimmerT_62473-T1, internal, 420, 590
-recovered GlimmerHMM_glimmerT_62473-T1, internal, 1182, 1267
Couldn't classify 420, 590
Couldn't classify 2386, 2641
Sorry, prediction snap_scaffold_1112-snap.1-T1 fails validation.
(CAG)	 AG	420-590	GT	TGG
(ACT)	 AG	1886-2110	GT	AGG
(GTC)	 AG	2386-2641	GT	CAG
-recovered snap_scaffold_1112-snap.1-T1, internal, 420, 590
-recovered snap_scaffold_1112-snap.1-T1, internal, 1886, 2110
-recovered snap_scaffold_1112-snap.1-T1, internal, 2386, 2641
Couldn't classify 423, 590
Sorry, prediction Augustus_model.g41533.t1 fails validation.
(CAG)	 AG	423-590	GT	TGG
(ACT)	 AG	1886-2110	GT	AGG
(GTC)	 AG	2386-2678	AG	GAA
-recovered Augustus_model.g41533.t1, terminal, 2386, 2678
-recovered Augustus_model.g41533.t1, internal, 423, 590
-recovered Augustus_model.g41533.t1, internal, 1886, 2110
Valid prediction for GlimmerHMM_glimmerT_62472-T1

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

-building trellis in range 1 - 3251
-exon list size: 30


building trellis

3.1    
6.2    
9.4    
12.5    
15.6    
18.8    
21.9    
25.0    
28.1    
31.2    
34.4    
37.5    
40.6    
43.8    
46.9    
50.0    
53.1    
56.2    
59.4    
62.5    
65.6    
68.8    
71.9    
75.0    
78.1    
81.2    
84.4    
87.5    
90.6    
93.8    
96.9    
-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