-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1205

-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 42, 83
Couldn't classify 2707, 2843
Sorry, prediction GeneMark_model.109032_t fails validation.
(AGA)	 AG	42-83	GT	AGG
(GGC)	 AG	169-304	GT	GGG
(GTG)	 AG	369-440	GT	GGG
(GAG)	 AG	683-693	GT	CGG
(GCT)	 AG	823-1089	GT	TTG
(AGA)	 AG	1252-1281	GT	AGG
(GAT)	 AG	1411-1521	GT	GCG
(AAG)	 AG	1547-2140	GT	AGG
(AGA)	 AG	2707-2843	GT	AGG
-recovered GeneMark_model.109032_t, internal, 42, 83
-recovered GeneMark_model.109032_t, internal, 169, 304
-recovered GeneMark_model.109032_t, internal, 369, 440
-recovered GeneMark_model.109032_t, internal, 683, 693
-recovered GeneMark_model.109032_t, internal, 823, 1089
-recovered GeneMark_model.109032_t, internal, 1252, 1281
-recovered GeneMark_model.109032_t, internal, 1411, 1521
-recovered GeneMark_model.109032_t, internal, 1547, 2140
-recovered GeneMark_model.109032_t, internal, 2707, 2843

-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 1, 122
Couldn't classify 2839, 2908
Sorry, prediction Augustus_model.g41579.t1 fails validation.
(CTC)	 TC	1-122	GT	CTG
(ATC)	 AG	580-703	GT	AGG
(ACA)	 AG	1257-1353	GT	AAG
(GAT)	 AG	1448-1581	GT	AGG
(AGG)	 AG	1756-1924	GT	CGG
(GTT)	 AG	2509-2697	GT	AGG
(CTG)	 AG	2839-2908	GT	GGG
-recovered Augustus_model.g41579.t1, terminal, 580, 703
-recovered Augustus_model.g41579.t1, internal, 580, 703
-recovered Augustus_model.g41579.t1, internal, 1257, 1353
-recovered Augustus_model.g41579.t1, internal, 1448, 1581
-recovered Augustus_model.g41579.t1, internal, 1756, 1924
-recovered Augustus_model.g41579.t1, internal, 2509, 2697
-recovered Augustus_model.g41579.t1, internal, 2839, 2908
Couldn't classify 580, 703
Sorry, prediction GlimmerHMM_glimmerT_62523-T1 fails validation.
(ATC)	 AG	580-703	GT	AGG
(ACA)	 AG	1257-1353	GT	AAG
(GAT)	 AG	1448-1581	GT	AGG
(AGG)	 AG	1756-1924	GT	CGG
(GTT)	 AG	2509-2767	TA	GAT
-recovered GlimmerHMM_glimmerT_62523-T1, terminal, 580, 703
-recovered GlimmerHMM_glimmerT_62523-T1, terminal, 2509, 2767
-recovered GlimmerHMM_glimmerT_62523-T1, internal, 580, 703
-recovered GlimmerHMM_glimmerT_62523-T1, internal, 1257, 1353
-recovered GlimmerHMM_glimmerT_62523-T1, internal, 1448, 1581
-recovered GlimmerHMM_glimmerT_62523-T1, internal, 1756, 1924
Couldn't classify 30, 122
Couldn't classify 2839, 2908
Sorry, prediction snap_scaffold_1205-snap.1-T1 fails validation.
(GTG)	 AG	30-122	GT	CTG
(ATC)	 AG	580-703	GT	AGG
(ACA)	 AG	1257-1353	GT	AAG
(GAT)	 AG	1448-1581	GT	AGG
(AGG)	 AG	1756-1924	GT	CGG
(GTT)	 AG	2509-2763	GT	GTG
(CTG)	 AG	2839-2908	GT	GGG
-recovered snap_scaffold_1205-snap.1-T1, terminal, 580, 703
-recovered snap_scaffold_1205-snap.1-T1, internal, 30, 122
-recovered snap_scaffold_1205-snap.1-T1, internal, 580, 703
-recovered snap_scaffold_1205-snap.1-T1, internal, 1257, 1353
-recovered snap_scaffold_1205-snap.1-T1, internal, 1448, 1581
-recovered snap_scaffold_1205-snap.1-T1, internal, 1756, 1924
-recovered snap_scaffold_1205-snap.1-T1, internal, 2509, 2763
-recovered snap_scaffold_1205-snap.1-T1, internal, 2839, 2908
Couldn't classify 1755, 1924
Couldn't classify 2839, 2869
Sorry, prediction pasa_asmbl_9227.p1 fails validation.
(GAG)	 CA	1755-1924	GT	CGG
(GTT)	 AG	2509-2697	GT	AGG
(CTG)	 AG	2839-2869	GT	CTG
-recovered pasa_asmbl_9227.p1, internal, 2509, 2697
-recovered pasa_asmbl_9227.p1, internal, 2839, 2869

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

-building trellis in range 1 - 2984
-exon list size: 34


building trellis

2.8    
5.6    
8.3    
11.1    
13.9    
16.7    
19.4    
22.2    
25.0    
27.8    
30.6    
33.3    
36.1    
38.9    
41.7    
44.4    
47.2    
50.0    
52.8    
55.6    
58.3    
61.1    
63.9    
66.7    
69.4    
72.2    
75.0    
77.8    
80.6    
83.3    
86.1    
88.9    
91.7    
94.4    
97.2    
-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