-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_862

-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_62298-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62298-T1 523-1082-terminal-1 is invalid.
Valid prediction for GeneMark_model.108509_t
Couldn't classify 3359, 3479
Sorry, prediction GlimmerHMM_glimmerT_62300-T1 fails validation.
(ATG)	 AG	2871-2938	GT	CCG
(CTT)	 AG	3359-3479	GT	TGG
-recovered GlimmerHMM_glimmerT_62300-T1, initial, 2871, 2938
-recovered GlimmerHMM_glimmerT_62300-T1, internal, 2871, 2938
-recovered GlimmerHMM_glimmerT_62300-T1, internal, 3359, 3479
Couldn't classify 3359, 3479
Sorry, prediction snap_scaffold_862-snap.1-T1 fails validation.
(ATG)	 CC	516-1068	GT	AAG
(CTC)	 AG	2724-2814	GT	CGG
(GAC)	 AG	2819-2938	GT	CCG
(CTT)	 AG	3359-3479	GT	TGG
-recovered snap_scaffold_862-snap.1-T1, initial, 516, 1068
-recovered snap_scaffold_862-snap.1-T1, internal, 2724, 2814
-recovered snap_scaffold_862-snap.1-T1, internal, 2819, 2938
-recovered snap_scaffold_862-snap.1-T1, internal, 3359, 3479
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 162, 220
Sorry, prediction Augustus_model.g41407.t1 fails validation.
(GAT)	 AG	162-220	GT	ATG
(ACT)	 AG	523-1082	TT	GAT
-recovered Augustus_model.g41407.t1, terminal, 523, 1082
-recovered Augustus_model.g41407.t1, internal, 162, 220

-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 879, 892
Sorry, prediction GeneMark_model.108510_t fails validation.
(GGA)	 AG	879-892	GC	AAG
(GTG)	 AG	1221-1534	GC	AAG
-recovered GeneMark_model.108510_t, terminal, 1221, 1534
-recovered GeneMark_model.108510_t, internal, 879, 892
-recovered GeneMark_model.108510_t, internal, 1221, 1534
Valid prediction for Augustus_model.g41408.t1
Valid prediction for GlimmerHMM_glimmerT_62299-T1

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

-building trellis in range 1 - 4179
-exon list size: 24


building trellis

3.8    
7.7    
11.5    
15.4    
19.2    
23.1    
26.9    
30.8    
34.6    
38.5    
42.3    
46.2    
50.0    
53.8    
57.7    
61.5    
65.4    
69.2    
73.1    
76.9    
80.8    
84.6    
88.5    
92.3    
96.2    
-found 3 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support