-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/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: +)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
Valid prediction for GlimmerHMM_glimmerT_61782-T1
Valid prediction for GeneMark_model.107492_t
Couldn't classify 309, 425
Sorry, prediction GeneMark_model.107490_t fails validation.
(GCG)	 AG	309-425	GT	AGG
(GTC)	 AG	1648-1714	GT	TGG
(TGC)	 AG	1869-2078	GT	GCG
(CCC)	 AG	2588-2646	CA	GAC
-recovered GeneMark_model.107490_t, terminal, 2588, 2646
-recovered GeneMark_model.107490_t, internal, 309, 425
-recovered GeneMark_model.107490_t, internal, 1648, 1714
-recovered GeneMark_model.107490_t, internal, 1869, 2078
Couldn't classify 309, 425
Sorry, prediction Augustus_model.g41061.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.g41061.t1 3331-3451-terminal-3 is invalid.
-recovered Augustus_model.g41061.t1, terminal, 3331, 3451
-recovered Augustus_model.g41061.t1, terminal, 6744, 6947
-recovered Augustus_model.g41061.t1, internal, 309, 425
-recovered Augustus_model.g41061.t1, internal, 1648, 1714
-recovered Augustus_model.g41061.t1, internal, 1869, 2100
-recovered Augustus_model.g41061.t1, internal, 2588, 2696
-recovered Augustus_model.g41061.t1, internal, 3331, 3451
-recovered Augustus_model.g41061.t1, internal, 3928, 4003
-recovered Augustus_model.g41061.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 GeneMark_model.107491_t
Valid prediction for GlimmerHMM_glimmerT_61783-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61783-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: 35


building trellis

2.7    
5.4    
8.1    
10.8    
13.5    
16.2    
18.9    
21.6    
24.3    
27.0    
29.7    
32.4    
35.1    
37.8    
40.5    
43.2    
45.9    
48.6    
51.4    
54.1    
56.8    
59.5    
62.2    
64.9    
67.6    
70.3    
73.0    
75.7    
78.4    
81.1    
83.8    
86.5    
89.2    
91.9    
94.6    
97.3    
-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