-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1204

-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 1122, 1180
Couldn't classify 2761, 2886
Sorry, prediction Augustus_model.g41578.t1 fails validation.
(GAT)	 AG	1122-1180	GT	AGG
(TTT)	 AG	1808-1880	GT	AGG
(GGC)	 AG	2450-2578	GT	AGG
(CTG)	 AG	2761-2886	GT	ACG
-recovered Augustus_model.g41578.t1, internal, 1122, 1180
-recovered Augustus_model.g41578.t1, internal, 1808, 1880
-recovered Augustus_model.g41578.t1, internal, 2450, 2578
-recovered Augustus_model.g41578.t1, internal, 2761, 2886
Couldn't classify 1122, 1180
Couldn't classify 2761, 2886
Sorry, prediction snap_scaffold_1204-snap.2-T1 fails validation.
(GAT)	 AG	1122-1180	GT	AGG
(TTT)	 AG	1808-1880	GT	AGG
(GGC)	 AG	2450-2578	GT	AGG
(CTG)	 AG	2761-2886	GT	ACG
-recovered snap_scaffold_1204-snap.2-T1, internal, 1122, 1180
-recovered snap_scaffold_1204-snap.2-T1, internal, 1808, 1880
-recovered snap_scaffold_1204-snap.2-T1, internal, 2450, 2578
-recovered snap_scaffold_1204-snap.2-T1, internal, 2761, 2886
Couldn't classify 1125, 1180
Couldn't classify 2761, 2886
Sorry, prediction pasa_asmbl_9226.p1 fails validation.
(GCC)	 AT	1125-1180	GT	AGG
(TTT)	 AG	1808-1880	GT	AGG
(GGC)	 AG	2450-2578	GT	AGG
(CTG)	 AG	2761-2886	GT	ACG
-recovered pasa_asmbl_9226.p1, internal, 1808, 1880
-recovered pasa_asmbl_9226.p1, internal, 2450, 2578
-recovered pasa_asmbl_9226.p1, internal, 2761, 2886
Couldn't classify 2761, 2886
Sorry, prediction GlimmerHMM_glimmerT_62522-T1 fails validation.
(ATG)	 GC	2501-2578	GT	AGG
(CTG)	 AG	2761-2886	GT	ACG
-recovered GlimmerHMM_glimmerT_62522-T1, initial, 2501, 2578
-recovered GlimmerHMM_glimmerT_62522-T1, internal, 2761, 2886

-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_1204-snap.1-T1
Couldn't classify 12, 143
Couldn't classify 2809, 2955
Sorry, prediction GeneMark_model.109031_t fails validation.
(TGA)	 AG	12-143	GT	TGG
(GTA)	 AG	380-514	GT	GGG
(GCA)	 AG	669-1158	GT	AGG
(GAC)	 AG	1846-2051	GT	GGG
(AGA)	 AG	2080-2088	GT	GGG
(AGA)	 AG	2135-2353	GT	GAG
(AAA)	 AG	2379-2471	GT	GAG
(GGA)	 AG	2495-2509	GT	GAG
(GGA)	 AG	2535-2567	GT	GAG
(AGA)	 AG	2597-2617	GT	GAG
(AGA)	 AG	2651-2671	GT	GAG
(AGA)	 AG	2705-2725	GT	GAG
(AGA)	 AG	2759-2779	GT	GAG
(AAA)	 AG	2809-2955	GT	GAG
-recovered GeneMark_model.109031_t, internal, 12, 143
-recovered GeneMark_model.109031_t, internal, 380, 514
-recovered GeneMark_model.109031_t, internal, 669, 1158
-recovered GeneMark_model.109031_t, internal, 1846, 2051
-recovered GeneMark_model.109031_t, internal, 2080, 2088
-recovered GeneMark_model.109031_t, internal, 2135, 2353
-recovered GeneMark_model.109031_t, internal, 2379, 2471
-recovered GeneMark_model.109031_t, internal, 2495, 2509
-recovered GeneMark_model.109031_t, internal, 2535, 2567
-recovered GeneMark_model.109031_t, internal, 2597, 2617
-recovered GeneMark_model.109031_t, internal, 2651, 2671
-recovered GeneMark_model.109031_t, internal, 2705, 2725
-recovered GeneMark_model.109031_t, internal, 2759, 2779
-recovered GeneMark_model.109031_t, internal, 2809, 2955

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

-building trellis in range 1 - 2987
-exon list size: 41


building trellis

2.3    
4.7    
7.0    
9.3    
11.6    
14.0    
16.3    
18.6    
20.9    
23.3    
25.6    
27.9    
30.2    
32.6    
34.9    
37.2    
39.5    
41.9    
44.2    
46.5    
48.8    
51.2    
53.5    
55.8    
58.1    
60.5    
62.8    
65.1    
67.4    
69.8    
72.1    
74.4    
76.7    
79.1    
81.4    
83.7    
86.0    
88.4    
90.7    
93.0    
95.3    
97.7    
-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