-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_212

-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 2179, 2313
Sorry, prediction pasa_asmbl_29052.p1 fails validation.
(GAT)	 CA	2179-2313	GT	AGG
(AAA)	 AG	2617-2826	AG	GAA
-recovered pasa_asmbl_29052.p1, terminal, 2617, 2826
Valid prediction for GlimmerHMM_glimmerT_61515-T1
Couldn't classify 9093, 9446
Sorry, prediction snap_scaffold_212-snap.3-T1 fails validation.
(ATG)	 GG	7367-7406	GT	AGG
(GTA)	 AG	9093-9446	GT	CGG
-recovered snap_scaffold_212-snap.3-T1, initial, 7367, 7406
-recovered snap_scaffold_212-snap.3-T1, internal, 9093, 9446
Valid prediction for snap_scaffold_212-snap.2-T1
Valid prediction for snap_scaffold_212-snap.1-T1
Valid prediction for GeneMark_model.106951_t
Valid prediction for GeneMark_model.106953_t
Couldn't classify 1421, 1489
Sorry, prediction Augustus_model.g40910.t1 fails validation.
(TTG)	 AG	1421-1489	GT	AGG
(ATC)	 AG	2180-2313	GT	AGG
(GTT)	 AG	2578-2811	GT	AGG
(CAA)	 AG	3914-4039	GT	AGG
(AAG)	 AG	4838-4981	CT	GAC
-recovered Augustus_model.g40910.t1, terminal, 4838, 4981
-recovered Augustus_model.g40910.t1, internal, 1421, 1489
-recovered Augustus_model.g40910.t1, internal, 2180, 2313
-recovered Augustus_model.g40910.t1, internal, 2578, 2811
-recovered Augustus_model.g40910.t1, internal, 3914, 4039
Valid prediction for GlimmerHMM_glimmerT_61514-T1

-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 GeneMark_model.106952_t
Couldn't classify 9382, 9391
Sorry, prediction GeneMark_model.106950_t fails validation.
(ATG)	 AG	8846-8853	GT	ATG
(GAA)	 AG	8983-9024	GT	GGG
(GAG)	 AG	9098-9157	GT	AAG
(GGA)	 AG	9208-9234	GT	GGG
(GAG)	 AG	9260-9283	GT	GGG
(GAG)	 AG	9304-9357	GT	GGG
(GGA)	 AG	9382-9391	GT	CTG
-recovered GeneMark_model.106950_t, initial, 8846, 8853
-recovered GeneMark_model.106950_t, internal, 8846, 8853
-recovered GeneMark_model.106950_t, internal, 8983, 9024
-recovered GeneMark_model.106950_t, internal, 9098, 9157
-recovered GeneMark_model.106950_t, internal, 9208, 9234
-recovered GeneMark_model.106950_t, internal, 9260, 9283
-recovered GeneMark_model.106950_t, internal, 9304, 9357
-recovered GeneMark_model.106950_t, internal, 9382, 9391
Couldn't classify 239, 301
Sorry, prediction GeneMark_model.106954_t fails validation.
(TAT)	 AG	239-301	GT	AGG
(AGT)	 AG	328-378	GT	AGG
(TAC)	 AG	401-409	GC	GAG
-recovered GeneMark_model.106954_t, terminal, 401, 409
-recovered GeneMark_model.106954_t, internal, 239, 301
-recovered GeneMark_model.106954_t, internal, 328, 378
-recovered GeneMark_model.106954_t, internal, 401, 409

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

-building trellis in range 1 - 9562
-exon list size: 52


building trellis

1.9    
3.7    
5.6    
7.4    
9.3    
11.1    
13.0    
14.8    
16.7    
18.5    
20.4    
22.2    
24.1    
25.9    
27.8    
29.6    
31.5    
33.3    
35.2    
37.0    
38.9    
40.7    
42.6    
44.4    
46.3    
48.1    
50.0    
51.9    
53.7    
55.6    
57.4    
59.3    
61.1    
63.0    
64.8    
66.7    
68.5    
70.4    
72.2    
74.1    
75.9    
77.8    
79.6    
81.5    
83.3    
85.2    
87.0    
88.9    
90.7    
92.6    
94.4    
96.3    
98.1    
-found 3 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support