-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_474

-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 6077, 6172
Sorry, prediction Augustus_model.g41142.t1 fails validation.
(ATG)	 GC	2406-2487	GT	CCG
(GGG)	 AG	2681-2703	GT	TGG
(AAG)	 AG	3701-3790	GT	AGG
(CAC)	 AG	4096-4164	GT	CAG
(GAC)	 AG	4440-4543	GT	AGG
(GTT)	 AG	5508-5607	GT	AGG
(GAG)	 AG	6077-6172	GT	AGG
-recovered Augustus_model.g41142.t1, initial, 2406, 2487
-recovered Augustus_model.g41142.t1, internal, 2681, 2703
-recovered Augustus_model.g41142.t1, internal, 3701, 3790
-recovered Augustus_model.g41142.t1, internal, 4096, 4164
-recovered Augustus_model.g41142.t1, internal, 4440, 4543
-recovered Augustus_model.g41142.t1, internal, 5508, 5607
-recovered Augustus_model.g41142.t1, internal, 6077, 6172
Couldn't classify 59, 79
Sorry, prediction GeneMark_model.107728_t fails validation.
(ACA)	 AG	59-79	GT	GAG
(GTG)	 AG	249-279	GT	GGG
(ACA)	 AG	2213-2339	GC	AGG
-recovered GeneMark_model.107728_t, terminal, 2213, 2339
-recovered GeneMark_model.107728_t, internal, 59, 79
-recovered GeneMark_model.107728_t, internal, 249, 279
-recovered GeneMark_model.107728_t, internal, 2213, 2339
Couldn't classify 59, 92
Couldn't classify 6173, 6365
Sorry, prediction snap_scaffold_474-snap.1-T1 fails validation.
(ACA)	 AG	59-92	GT	GAG
(AAG)	 AG	3701-3790	GT	AGG
(CAC)	 AG	4096-4164	GT	CAG
(GAC)	 AG	4440-4543	GT	AGG
(GTT)	 AG	5508-5941	GT	AGG
(GTC)	 AG	6173-6365	GT	GGG
-recovered snap_scaffold_474-snap.1-T1, internal, 59, 92
-recovered snap_scaffold_474-snap.1-T1, internal, 3701, 3790
-recovered snap_scaffold_474-snap.1-T1, internal, 4096, 4164
-recovered snap_scaffold_474-snap.1-T1, internal, 4440, 4543
-recovered snap_scaffold_474-snap.1-T1, internal, 5508, 5941
-recovered snap_scaffold_474-snap.1-T1, internal, 6173, 6365
Couldn't classify 3719, 3790
Couldn't classify 6077, 6172
Sorry, prediction pasa_asmbl_43710.p1 fails validation.
(AGA)	 AG	3719-3790	GT	AGG
(CAC)	 AG	4096-4164	GT	CAG
(GAC)	 AG	4440-4543	GT	AGG
(GTT)	 AG	5508-5607	GT	AGG
(GAG)	 AG	6077-6172	GT	AGG
-recovered pasa_asmbl_43710.p1, internal, 3719, 3790
-recovered pasa_asmbl_43710.p1, internal, 4096, 4164
-recovered pasa_asmbl_43710.p1, internal, 4440, 4543
-recovered pasa_asmbl_43710.p1, internal, 5508, 5607
-recovered pasa_asmbl_43710.p1, internal, 6077, 6172
Couldn't classify 6077, 6172
Sorry, prediction GlimmerHMM_glimmerT_61892-T1 fails validation.
(ATG)	 TC	4479-4543	GT	AGG
(GTT)	 AG	5508-5607	GT	AGG
(GAG)	 AG	6077-6172	GT	AGG
-recovered GlimmerHMM_glimmerT_61892-T1, initial, 4479, 4543
-recovered GlimmerHMM_glimmerT_61892-T1, internal, 5508, 5607
-recovered GlimmerHMM_glimmerT_61892-T1, internal, 6077, 6172
Couldn't classify 6199, 6365
Sorry, prediction GeneMark_model.107729_t fails validation.
(ATG)	 TT	4102-4164	GT	CAG
(GAC)	 AG	4440-4543	GT	AGG
(CAA)	 AG	5553-5687	GT	GAG
(GAA)	 AG	5717-5767	GT	AGG
(AGG)	 AG	5791-5889	GT	GGG
(AAG)	 AG	5912-5941	GT	AGG
(AGA)	 AG	5963-5968	GT	AGG
(GGC)	 AG	6000-6009	GT	GAG
(GAG)	 AG	6077-6172	GT	AGG
(CCA)	 AG	6199-6365	GT	GGG
-recovered GeneMark_model.107729_t, initial, 4102, 4164
-recovered GeneMark_model.107729_t, internal, 4440, 4543
-recovered GeneMark_model.107729_t, internal, 5553, 5687
-recovered GeneMark_model.107729_t, internal, 5717, 5767
-recovered GeneMark_model.107729_t, internal, 5791, 5889
-recovered GeneMark_model.107729_t, internal, 5912, 5941
-recovered GeneMark_model.107729_t, internal, 5963, 5968
-recovered GeneMark_model.107729_t, internal, 6000, 6009
-recovered GeneMark_model.107729_t, internal, 6077, 6172
-recovered GeneMark_model.107729_t, internal, 6199, 6365

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

-building trellis in range 1 - 6679
-exon list size: 49


building trellis

2.0    
3.9    
5.9    
7.8    
9.8    
11.8    
13.7    
15.7    
17.6    
19.6    
21.6    
23.5    
25.5    
27.5    
29.4    
31.4    
33.3    
35.3    
37.3    
39.2    
41.2    
43.1    
45.1    
47.1    
49.0    
51.0    
52.9    
54.9    
56.9    
58.8    
60.8    
62.7    
64.7    
66.7    
68.6    
70.6    
72.5    
74.5    
76.5    
78.4    
80.4    
82.4    
84.3    
86.3    
88.2    
90.2    
92.2    
94.1    
96.1    
98.0    
-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