-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_86

-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 18173, 18190
Sorry, prediction snap_scaffold_86-snap.3-T1 fails validation.
(ATG)	 GA	15258-15267	GT	ATG
(GGC)	 AG	15339-15390	GT	AGG
(GGG)	 AG	15935-16086	GT	GGG
(ACA)	 AG	16497-16519	GT	AGG
(GTT)	 AG	17320-17485	GT	AGG
(TGC)	 AG	17600-17652	GT	AGG
(ATG)	 AG	18173-18190	GT	TGG
-recovered snap_scaffold_86-snap.3-T1, initial, 15258, 15267
-recovered snap_scaffold_86-snap.3-T1, initial, 18173, 18190
-recovered snap_scaffold_86-snap.3-T1, internal, 15339, 15390
-recovered snap_scaffold_86-snap.3-T1, internal, 15935, 16086
-recovered snap_scaffold_86-snap.3-T1, internal, 16497, 16519
-recovered snap_scaffold_86-snap.3-T1, internal, 17320, 17485
-recovered snap_scaffold_86-snap.3-T1, internal, 17600, 17652
-recovered snap_scaffold_86-snap.3-T1, internal, 18173, 18190
Valid prediction for GeneMark_model.106484_t
Couldn't classify 17320, 17485
Sorry, prediction GlimmerHMM_glimmerT_61244-T1 fails validation.
(ATG)	 GA	13415-13541	GT	GAG
(AAC)	 AG	15116-15221	GT	CTG
(GGG)	 AG	15935-16086	GT	GGG
(ACA)	 AG	16497-16519	GT	AGG
(GTT)	 AG	17320-17485	GT	AGG
-recovered GlimmerHMM_glimmerT_61244-T1, initial, 13415, 13541
-recovered GlimmerHMM_glimmerT_61244-T1, internal, 15116, 15221
-recovered GlimmerHMM_glimmerT_61244-T1, internal, 15935, 16086
-recovered GlimmerHMM_glimmerT_61244-T1, internal, 16497, 16519
-recovered GlimmerHMM_glimmerT_61244-T1, internal, 17320, 17485
Valid prediction for HiQ_model.g40737.t1
Valid prediction for pasa_asmbl_53695.p1
Valid prediction for GeneMark_model.106486_t
Valid prediction for GlimmerHMM_glimmerT_61241-T1
Valid prediction for Augustus_model.g40738.t1
Valid prediction for GlimmerHMM_glimmerT_61243-T1
Valid prediction for GeneMark_model.106482_t
Valid prediction for snap_scaffold_86-snap.2-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 GlimmerHMM_glimmerT_61242-T1
Couldn't classify 101, 131
Sorry, prediction GeneMark_model.106487_t fails validation.
(GGA)	 AG	101-131	GT	GCG
(AAC)	 AG	755-1014	GT	CAG
(AAG)	 AG	1605-1619	GT	AGG
(GAT)	 AG	1656-1667	GT	AGG
(GAT)	 AG	1688-1699	GT	AGG
(AGG)	 AG	1854-2006	GT	CAG
(GCA)	 AG	2155-2172	GT	CGG
(ACA)	 AG	2210-2320	GT	GGG
(GGG)	 AG	2341-2355	GT	AGG
(ACA)	 AG	2380-2397	GT	AGG
(AGA)	 AG	2420-2431	GT	GGG
(ATG)	 AG	2466-2484	GT	AGG
(ATC)	 AG	2837-2953	CG	AAC
-recovered GeneMark_model.106487_t, initial, 2466, 2484
-recovered GeneMark_model.106487_t, terminal, 2837, 2953
-recovered GeneMark_model.106487_t, internal, 101, 131
-recovered GeneMark_model.106487_t, internal, 755, 1014
-recovered GeneMark_model.106487_t, internal, 1605, 1619
-recovered GeneMark_model.106487_t, internal, 1656, 1667
-recovered GeneMark_model.106487_t, internal, 1688, 1699
-recovered GeneMark_model.106487_t, internal, 1854, 2006
-recovered GeneMark_model.106487_t, internal, 2155, 2172
-recovered GeneMark_model.106487_t, internal, 2210, 2320
-recovered GeneMark_model.106487_t, internal, 2341, 2355
-recovered GeneMark_model.106487_t, internal, 2380, 2397
-recovered GeneMark_model.106487_t, internal, 2420, 2431
-recovered GeneMark_model.106487_t, internal, 2466, 2484
Valid prediction for GeneMark_model.106485_t
Valid prediction for GeneMark_model.106483_t
Valid prediction for Augustus_model.g40736.t1
Valid prediction for snap_scaffold_86-snap.1-T1

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

-building trellis in range 1 - 18250
-exon list size: 71


building trellis

1.4    
2.7    
4.1    
5.5    
6.8    
8.2    
9.6    
11.0    
12.3    
13.7    
15.1    
16.4    
17.8    
19.2    
20.5    
21.9    
23.3    
24.7    
26.0    
27.4    
28.8    
30.1    
31.5    
32.9    
34.2    
35.6    
37.0    
38.4    
39.7    
41.1    
42.5    
43.8    
45.2    
46.6    
47.9    
49.3    
50.7    
52.1    
53.4    
54.8    
56.2    
57.5    
58.9    
60.3    
61.6    
63.0    
64.4    
65.8    
67.1    
68.5    
69.9    
71.2    
72.6    
74.0    
75.3    
76.7    
78.1    
79.5    
80.8    
82.2    
83.6    
84.9    
86.3    
87.7    
89.0    
90.4    
91.8    
93.2    
94.5    
95.9    
97.3    
98.6    
-found 3 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 3 predictions persist after filtering for low support