-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_479

-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 1126, 1559
Couldn't classify 5675, 5809
Sorry, prediction snap_scaffold_479-snap.3-T1 fails validation.
(GTG)	 AG	1126-1559	GT	GGG
(CCA)	 AG	3703-3978	GT	AGG
(GTG)	 AG	4188-4862	GT	ACG
(AGG)	 AG	5675-5809	GT	TGG
-recovered snap_scaffold_479-snap.3-T1, internal, 1126, 1559
-recovered snap_scaffold_479-snap.3-T1, internal, 3703, 3978
-recovered snap_scaffold_479-snap.3-T1, internal, 4188, 4862
-recovered snap_scaffold_479-snap.3-T1, internal, 5675, 5809
Valid prediction for GlimmerHMM_glimmerT_60402-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: -)Couldn't classify 248, 294
Couldn't classify 6419, 6476
Sorry, prediction Augustus_model.g39985.t1 fails validation.
(AAC)	 AG	248-294	GT	TGG
(GTA)	 AG	790-971	GT	TGG
(GGT)	 AG	2918-3045	GT	CGG
(GTG)	 AG	5990-6092	GT	ATG
(GCA)	 AG	6419-6476	GT	TGG
-recovered Augustus_model.g39985.t1, internal, 248, 294
-recovered Augustus_model.g39985.t1, internal, 790, 971
-recovered Augustus_model.g39985.t1, internal, 2918, 3045
-recovered Augustus_model.g39985.t1, internal, 5990, 6092
-recovered Augustus_model.g39985.t1, internal, 6419, 6476
Couldn't classify 248, 294
Sorry, prediction snap_scaffold_479-snap.2-T1 fails validation.
(AAC)	 AG	248-294	GT	TGG
(GTA)	 AG	790-971	GT	TGG
(GGT)	 AG	2918-3208	GT	GGG
(TGC)	 AG	5108-5539	AC	GAA
-recovered snap_scaffold_479-snap.2-T1, terminal, 5108, 5539
-recovered snap_scaffold_479-snap.2-T1, internal, 248, 294
-recovered snap_scaffold_479-snap.2-T1, internal, 790, 971
-recovered snap_scaffold_479-snap.2-T1, internal, 2918, 3208
Valid prediction for GlimmerHMM_glimmerT_60400-T1
Valid prediction for GlimmerHMM_glimmerT_60401-T1
Valid prediction for GlimmerHMM_glimmerT_60403-T1
add_exon() Sorry, GlimmerHMM_glimmerT_60403-T1 790-1019-terminal-1 is invalid.
Couldn't classify 6419, 6476
Sorry, prediction snap_scaffold_479-snap.1-T1 fails validation.
(ATG)	 AC	5542-5579	GT	GGG
(GTG)	 AG	5990-6092	GT	ATG
(GCA)	 AG	6419-6476	GT	TGG
-recovered snap_scaffold_479-snap.1-T1, initial, 5542, 5579
-recovered snap_scaffold_479-snap.1-T1, internal, 5990, 6092
-recovered snap_scaffold_479-snap.1-T1, internal, 6419, 6476

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6395, rend_intergenic: 1126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 6642
-exon list size: 20


building trellis

4.5    
9.1    
13.6    
18.2    
22.7    
27.3    
31.8    
36.4    
40.9    
45.5    
50.0    
54.5    
59.1    
63.6    
68.2    
72.7    
77.3    
81.8    
86.4    
90.9    
95.5    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 6395, rend_intergenic: 1126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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