-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_99

-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: +)Valid prediction for GlimmerHMM_glimmerT_61280-T1
Valid prediction for snap_scaffold_99-snap.2-T1
Couldn't classify 14948, 15001
Sorry, prediction GeneMark_model.106547_t fails validation.
(ATG)	 GG	14521-14558	GT	GGG
(AGG)	 AG	14718-14726	GT	GGG
(GCT)	 AG	14755-14814	GT	GGG
(AAT)	 AG	14836-14886	GT	GGG
(GGA)	 AG	14948-15001	GT	CAG
-recovered GeneMark_model.106547_t, initial, 14521, 14558
-recovered GeneMark_model.106547_t, internal, 14718, 14726
-recovered GeneMark_model.106547_t, internal, 14755, 14814
-recovered GeneMark_model.106547_t, internal, 14836, 14886
-recovered GeneMark_model.106547_t, internal, 14948, 15001
Valid prediction for snap_scaffold_99-snap.5-T1
Couldn't classify 1400, 1462
Sorry, prediction snap_scaffold_99-snap.1-T1 fails validation.
(TCT)	 AG	1400-1462	GT	CTG
(CCC)	 AG	2368-2535	CC	AGC
-recovered snap_scaffold_99-snap.1-T1, terminal, 2368, 2535
-recovered snap_scaffold_99-snap.1-T1, internal, 1400, 1462
Valid prediction for GlimmerHMM_glimmerT_61281-T1
Valid prediction for GeneMark_model.106546_t

-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_99-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_61279-T1
Valid prediction for snap_scaffold_99-snap.4-T1
Valid prediction for Augustus_model.g40766.t1
Valid prediction for GeneMark_model.106545_t

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

-building trellis in range 1 - 16000
-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 5 predictions from path traversal

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