-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_489

-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 375, 542
Sorry, prediction pasa_asmbl_43743.p1 fails validation.
(GAA)	 CA	375-542	GT	AGG
(AGG)	 AG	1349-1445	GT	AGG
(GCC)	 AG	1842-1939	GT	TGG
(AGC)	 AG	2088-2180	GT	GGG
(GGC)	 AG	3482-3552	GT	AGG
(GTA)	 AG	3937-4044	GT	AGG
(CGG)	 AG	4222-4390	GT	GAG
-recovered pasa_asmbl_43743.p1, terminal, 4222, 4390
-recovered pasa_asmbl_43743.p1, internal, 1349, 1445
-recovered pasa_asmbl_43743.p1, internal, 1842, 1939
-recovered pasa_asmbl_43743.p1, internal, 2088, 2180
-recovered pasa_asmbl_43743.p1, internal, 3482, 3552
-recovered pasa_asmbl_43743.p1, internal, 3937, 4044
-recovered pasa_asmbl_43743.p1, internal, 4222, 4390
Couldn't classify 376, 785
Couldn't classify 5194, 5324
Sorry, prediction snap_scaffold_489-snap.1-T1 fails validation.
(AAA)	 AG	376-785	GT	ATG
(AGG)	 AG	1349-1445	GT	AGG
(GCC)	 AG	1842-1939	GT	TGG
(AGC)	 AG	2088-2180	GT	GGG
(GGC)	 AG	3482-3552	GT	AGG
(GTA)	 AG	3937-4044	GT	AGG
(CGG)	 AG	4222-4386	GT	ACG
(CTG)	 AG	4464-4477	GT	TGG
(TAT)	 AG	4898-5012	GT	AGG
(ACT)	 AG	5194-5324	GT	AGG
-recovered snap_scaffold_489-snap.1-T1, internal, 376, 785
-recovered snap_scaffold_489-snap.1-T1, internal, 1349, 1445
-recovered snap_scaffold_489-snap.1-T1, internal, 1842, 1939
-recovered snap_scaffold_489-snap.1-T1, internal, 2088, 2180
-recovered snap_scaffold_489-snap.1-T1, internal, 3482, 3552
-recovered snap_scaffold_489-snap.1-T1, internal, 3937, 4044
-recovered snap_scaffold_489-snap.1-T1, internal, 4222, 4386
-recovered snap_scaffold_489-snap.1-T1, internal, 4464, 4477
-recovered snap_scaffold_489-snap.1-T1, internal, 4898, 5012
-recovered snap_scaffold_489-snap.1-T1, internal, 5194, 5324
Valid prediction for GlimmerHMM_glimmerT_60413-T1
add_exon() Sorry, GlimmerHMM_glimmerT_60413-T1 376-920-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_60414-T1
Couldn't classify 376, 542
Sorry, prediction Augustus_model.g39993.t1 fails validation.
(AAA)	 AG	376-542	GT	AGG
(AGG)	 AG	1349-1445	GT	AGG
(GCC)	 AG	1842-1939	GT	TGG
(AGC)	 AG	2088-2180	GT	GGG
(GGC)	 AG	3482-3552	GT	AGG
(GTA)	 AG	3937-4044	GT	AGG
(CGG)	 AG	4222-4386	GT	ACG
(CTG)	 AG	4464-4477	GT	TGG
(TAT)	 AG	4898-5012	GT	AGG
(ACT)	 AG	5194-5353	CG	AGC
-recovered Augustus_model.g39993.t1, terminal, 5194, 5353
-recovered Augustus_model.g39993.t1, internal, 376, 542
-recovered Augustus_model.g39993.t1, internal, 1349, 1445
-recovered Augustus_model.g39993.t1, internal, 1842, 1939
-recovered Augustus_model.g39993.t1, internal, 2088, 2180
-recovered Augustus_model.g39993.t1, internal, 3482, 3552
-recovered Augustus_model.g39993.t1, internal, 3937, 4044
-recovered Augustus_model.g39993.t1, internal, 4222, 4386
-recovered Augustus_model.g39993.t1, internal, 4464, 4477
-recovered Augustus_model.g39993.t1, internal, 4898, 5012

-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 snap_scaffold_489-snap.2-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5324, rend_intergenic: 826  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 6539
-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
Error with prediction: snap lend_intergenic: 5324, rend_intergenic: 826  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