-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_249

-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 Augustus_model.g39783.t1
add_exon() Sorry, Augustus_model.g39783.t1 243-564-terminal-1 is invalid.
Couldn't classify 243, 556
Couldn't classify 8987, 9054
Sorry, prediction snap_scaffold_249-snap.1-T1 fails validation.
(GGA)	 AG	243-556	GT	CTG
(GTG)	 AG	2640-2695	GT	AAG
(GCG)	 AG	4212-4294	GT	CGG
(ACA)	 AG	4483-4627	GT	AAG
(AAC)	 AG	5007-5096	GT	AGG
(AGC)	 AG	5229-5348	GT	TGG
(GCG)	 AG	5692-5820	GT	GGG
(TCA)	 AG	8987-9054	GT	AAG
-recovered snap_scaffold_249-snap.1-T1, internal, 243, 556
-recovered snap_scaffold_249-snap.1-T1, internal, 2640, 2695
-recovered snap_scaffold_249-snap.1-T1, internal, 4212, 4294
-recovered snap_scaffold_249-snap.1-T1, internal, 4483, 4627
-recovered snap_scaffold_249-snap.1-T1, internal, 5007, 5096
-recovered snap_scaffold_249-snap.1-T1, internal, 5229, 5348
-recovered snap_scaffold_249-snap.1-T1, internal, 5692, 5820
-recovered snap_scaffold_249-snap.1-T1, internal, 8987, 9054
Couldn't classify 5692, 5820
Sorry, prediction GlimmerHMM_glimmerT_60076-T1 fails validation.
(ATG)	 CG	4215-4294	GT	CGG
(ACA)	 AG	4483-4627	GT	AAG
(AAC)	 AG	5007-5096	GT	AGG
(AGC)	 AG	5229-5348	GT	TGG
(GCG)	 AG	5692-5820	GT	GGG
-recovered GlimmerHMM_glimmerT_60076-T1, initial, 4215, 4294
-recovered GlimmerHMM_glimmerT_60076-T1, internal, 4483, 4627
-recovered GlimmerHMM_glimmerT_60076-T1, internal, 5007, 5096
-recovered GlimmerHMM_glimmerT_60076-T1, internal, 5229, 5348
-recovered GlimmerHMM_glimmerT_60076-T1, internal, 5692, 5820
Valid prediction for Augustus_model.g39784.t1
Valid prediction for GlimmerHMM_glimmerT_60075-T1
add_exon() Sorry, GlimmerHMM_glimmerT_60075-T1 243-564-terminal-1 is invalid.

-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 35, 185
Sorry, prediction snap_scaffold_249-snap.2-T1 fails validation.
(GAA)	 AG	35-185	GT	ATG
(CGC)	 AG	3354-3426	GT	GGG
(CCA)	 AG	3756-3855	GT	CTG
(AAC)	 AG	4516-4656	AC	AAA
-recovered snap_scaffold_249-snap.2-T1, terminal, 4516, 4656
-recovered snap_scaffold_249-snap.2-T1, internal, 35, 185
-recovered snap_scaffold_249-snap.2-T1, internal, 3354, 3426
-recovered snap_scaffold_249-snap.2-T1, internal, 3756, 3855

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9054, rend_intergenic: 4445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 9100
-exon list size: 21


building trellis

4.3    
8.7    
13.0    
17.4    
21.7    
26.1    
30.4    
34.8    
39.1    
43.5    
47.8    
52.2    
56.5    
60.9    
65.2    
69.6    
73.9    
78.3    
82.6    
87.0    
91.3    
95.7    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 9054, rend_intergenic: 4445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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