-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_387

-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_60277-T1
Couldn't classify 309, 425
Sorry, prediction snap_scaffold_387-snap.1-T1 fails validation.
(GCG)	 AG	309-425	GT	AGG
(GAT)	 AG	553-630	GT	AGG
(GTC)	 AG	1648-1714	GT	TGG
(TGC)	 AG	1869-2100	GT	AGG
(CCC)	 AG	2588-2696	GT	AGG
(GTG)	 AG	3331-3451	GT	AGG
(AGA)	 AG	3928-4003	GT	AGG
(GAA)	 AG	5337-5500	GT	GAG
(CCC)	 AG	6914-7047	AG	AGA
add_exon() Sorry, snap_scaffold_387-snap.1-T1 3331-3451-terminal-3 is invalid.
-recovered snap_scaffold_387-snap.1-T1, terminal, 3331, 3451
-recovered snap_scaffold_387-snap.1-T1, terminal, 6914, 7047
-recovered snap_scaffold_387-snap.1-T1, internal, 309, 425
-recovered snap_scaffold_387-snap.1-T1, internal, 553, 630
-recovered snap_scaffold_387-snap.1-T1, internal, 1648, 1714
-recovered snap_scaffold_387-snap.1-T1, internal, 1869, 2100
-recovered snap_scaffold_387-snap.1-T1, internal, 2588, 2696
-recovered snap_scaffold_387-snap.1-T1, internal, 3331, 3451
-recovered snap_scaffold_387-snap.1-T1, internal, 3928, 4003
-recovered snap_scaffold_387-snap.1-T1, internal, 5337, 5500
Couldn't classify 309, 425
Sorry, prediction Augustus_model.g39900.t1 fails validation.
(GCG)	 AG	309-425	GT	AGG
(GTC)	 AG	1648-1714	GT	TGG
(TGC)	 AG	1869-2100	GT	AGG
(CCC)	 AG	2588-2696	GT	AGG
(GTG)	 AG	3331-3451	GT	AGG
(AGA)	 AG	3928-4003	GT	AGG
(TGT)	 AG	5615-5648	GT	TGG
(CCA)	 AG	6744-6947	TG	GAT
add_exon() Sorry, Augustus_model.g39900.t1 3331-3451-terminal-3 is invalid.
-recovered Augustus_model.g39900.t1, terminal, 3331, 3451
-recovered Augustus_model.g39900.t1, terminal, 6744, 6947
-recovered Augustus_model.g39900.t1, internal, 309, 425
-recovered Augustus_model.g39900.t1, internal, 1648, 1714
-recovered Augustus_model.g39900.t1, internal, 1869, 2100
-recovered Augustus_model.g39900.t1, internal, 2588, 2696
-recovered Augustus_model.g39900.t1, internal, 3331, 3451
-recovered Augustus_model.g39900.t1, internal, 3928, 4003
-recovered Augustus_model.g39900.t1, internal, 5615, 5648

-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 GlimmerHMM_glimmerT_60278-T1
add_exon() Sorry, GlimmerHMM_glimmerT_60278-T1 476-687-terminal-1 is invalid.
Couldn't classify 476, 611
Couldn't classify 5406, 5571
Sorry, prediction snap_scaffold_387-snap.2-T1 fails validation.
(GTC)	 AG	476-611	GT	GGG
(CTG)	 AG	4130-4695	GT	CCG
(CTG)	 AG	5406-5571	GT	GTG
-recovered snap_scaffold_387-snap.2-T1, internal, 476, 611
-recovered snap_scaffold_387-snap.2-T1, internal, 4130, 4695
-recovered snap_scaffold_387-snap.2-T1, internal, 5406, 5571

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7047, rend_intergenic: 1895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7465
-exon list size: 22


building trellis

4.2    
8.3    
12.5    
16.7    
20.8    
25.0    
29.2    
33.3    
37.5    
41.7    
45.8    
50.0    
54.2    
58.3    
62.5    
66.7    
70.8    
75.0    
79.2    
83.3    
87.5    
91.7    
95.8    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 7047, rend_intergenic: 1895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support