-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_822

-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_62267-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62267-T1 314-1013-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_62268-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_822-snap.1-T1
add_exon() Sorry, snap_scaffold_822-snap.1-T1 314-1013-terminal-1 is invalid.
Valid prediction for snap_scaffold_822-snap.2-T1
Couldn't classify 20, 294
Couldn't classify 4141, 4308
Sorry, prediction GeneMark_model.108439_t fails validation.
(CGG)	 AG	20-294	GC	CTG
(GCT)	 AG	379-999	GC	CTG
(GCT)	 AG	1021-1209	GC	AGG
(ATT)	 AG	1396-1644	GT	CAG
(GCT)	 AG	1732-1977	GT	CAG
(GCT)	 AG	2086-2544	GC	CTG
(GCT)	 AG	2566-3006	GC	CTG
(GCT)	 AG	3049-3213	GT	CAG
(ACT)	 AG	3469-3717	GC	CAG
(AAT)	 AG	3805-4119	GC	CTG
(GCT)	 AG	4141-4308	GC	AGG
-recovered GeneMark_model.108439_t, internal, 20, 294
-recovered GeneMark_model.108439_t, internal, 379, 999
-recovered GeneMark_model.108439_t, internal, 1021, 1209
-recovered GeneMark_model.108439_t, internal, 1396, 1644
-recovered GeneMark_model.108439_t, internal, 1732, 1977
-recovered GeneMark_model.108439_t, internal, 2086, 2544
-recovered GeneMark_model.108439_t, internal, 2566, 3006
-recovered GeneMark_model.108439_t, internal, 3049, 3213
-recovered GeneMark_model.108439_t, internal, 3469, 3717
-recovered GeneMark_model.108439_t, internal, 3805, 4119
-recovered GeneMark_model.108439_t, internal, 4141, 4308
Couldn't classify 2008, 4331
Sorry, prediction GlimmerHMM_glimmerT_62269-T1 fails validation.
(ATG)	 CG	2008-4331		GC

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

-building trellis in range 1 - 4331
-exon list size: 29


building trellis

3.2    
6.5    
9.7    
12.9    
16.1    
19.4    
22.6    
25.8    
29.0    
32.3    
35.5    
38.7    
41.9    
45.2    
48.4    
51.6    
54.8    
58.1    
61.3    
64.5    
67.7    
71.0    
74.2    
77.4    
80.6    
83.9    
87.1    
90.3    
93.5    
96.8    
-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