-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_219

-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 7551, 7706
Sorry, prediction GlimmerHMM_glimmerT_61528-T1 fails validation.
(ATG)	 GG	883-966	GT	AGG
(AGA)	 AG	4348-4422	GT	AGG
(GGA)	 AG	4510-4590	GT	ATG
(ATG)	 AG	4813-4920	GT	AGG
(GAT)	 AG	5707-5778	GT	AGG
(GGA)	 AG	7095-7254	GT	CCG
(GGA)	 AG	7551-7706	GT	AGG
-recovered GlimmerHMM_glimmerT_61528-T1, initial, 883, 966
-recovered GlimmerHMM_glimmerT_61528-T1, initial, 4813, 4920
-recovered GlimmerHMM_glimmerT_61528-T1, internal, 4348, 4422
-recovered GlimmerHMM_glimmerT_61528-T1, internal, 4510, 4590
-recovered GlimmerHMM_glimmerT_61528-T1, internal, 4813, 4920
-recovered GlimmerHMM_glimmerT_61528-T1, internal, 5707, 5778
-recovered GlimmerHMM_glimmerT_61528-T1, internal, 7095, 7254
-recovered GlimmerHMM_glimmerT_61528-T1, internal, 7551, 7706
Couldn't classify 553, 621
Sorry, prediction Augustus_model.g40919.t1 fails validation.
(GAT)	 AG	553-621	GT	GAG
(GAG)	 AG	872-966	GT	AGG
(AGA)	 AG	4348-4422	GT	AGG
(GGA)	 AG	4510-4590	GT	ATG
(ATG)	 AG	4813-4920	GT	AGG
(GAT)	 AG	5707-5778	GT	AGG
(GGA)	 AG	7095-7254	GT	CCG
(GGA)	 AG	7551-7706	GT	AGG
(CTC)	 AG	8525-8547	AC	AAA
-recovered Augustus_model.g40919.t1, initial, 4813, 4920
-recovered Augustus_model.g40919.t1, terminal, 8525, 8547
-recovered Augustus_model.g40919.t1, internal, 553, 621
-recovered Augustus_model.g40919.t1, internal, 872, 966
-recovered Augustus_model.g40919.t1, internal, 4348, 4422
-recovered Augustus_model.g40919.t1, internal, 4510, 4590
-recovered Augustus_model.g40919.t1, internal, 4813, 4920
-recovered Augustus_model.g40919.t1, internal, 5707, 5778
-recovered Augustus_model.g40919.t1, internal, 7095, 7254
-recovered Augustus_model.g40919.t1, internal, 7551, 7706
Valid prediction for GeneMark_model.106975_t
Couldn't classify 872, 966
Sorry, prediction snap_scaffold_219-snap.1-T1 fails validation.
(GAG)	 AG	872-966	GT	AGG
(AGA)	 AG	4348-4422	GT	AGG
(GGA)	 AG	4510-4590	GT	ATG
(ATG)	 AG	4813-4920	GT	AGG
(GAT)	 AG	5707-5778	GT	AGG
(ACA)	 AG	5990-6067	AA	GAA
-recovered snap_scaffold_219-snap.1-T1, initial, 4813, 4920
-recovered snap_scaffold_219-snap.1-T1, terminal, 5990, 6067
-recovered snap_scaffold_219-snap.1-T1, internal, 872, 966
-recovered snap_scaffold_219-snap.1-T1, internal, 4348, 4422
-recovered snap_scaffold_219-snap.1-T1, internal, 4510, 4590
-recovered snap_scaffold_219-snap.1-T1, internal, 4813, 4920
-recovered snap_scaffold_219-snap.1-T1, internal, 5707, 5778

-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 1764, 1814
Couldn't classify 8195, 8435
Sorry, prediction snap_scaffold_219-snap.2-T1 fails validation.
(GTA)	 AG	1764-1814	GT	CTG
(GGT)	 AG	1843-1894	GT	TGG
(GGG)	 AG	4093-4516	GT	GTG
(AAC)	 AG	4845-4994	GT	AGG
(GAT)	 AG	8195-8435	GT	AGG
-recovered snap_scaffold_219-snap.2-T1, internal, 1764, 1814
-recovered snap_scaffold_219-snap.2-T1, internal, 1843, 1894
-recovered snap_scaffold_219-snap.2-T1, internal, 4093, 4516
-recovered snap_scaffold_219-snap.2-T1, internal, 4845, 4994
-recovered snap_scaffold_219-snap.2-T1, internal, 8195, 8435
Couldn't classify 8783, 8797
Sorry, prediction GeneMark_model.106973_t fails validation.
(ATG)	 GG	8196-8269	GT	AAG
(GAC)	 AG	8335-8397	GT	AGG
(AGA)	 AG	8418-8435	GT	AGG
(GAG)	 AG	8597-8608	GT	GGG
(GAA)	 AG	8635-8700	GT	GAG
(AGG)	 AG	8728-8757	GT	AGG
(AGG)	 AG	8783-8797	GT	GAG
-recovered GeneMark_model.106973_t, initial, 8196, 8269
-recovered GeneMark_model.106973_t, internal, 8335, 8397
-recovered GeneMark_model.106973_t, internal, 8418, 8435
-recovered GeneMark_model.106973_t, internal, 8597, 8608
-recovered GeneMark_model.106973_t, internal, 8635, 8700
-recovered GeneMark_model.106973_t, internal, 8728, 8757
-recovered GeneMark_model.106973_t, internal, 8783, 8797
Valid prediction for GeneMark_model.106974_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6067, rend_intergenic: 1007  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 9441
-exon list size: 54


building trellis

1.8    
3.6    
5.4    
7.1    
8.9    
10.7    
12.5    
14.3    
16.1    
17.9    
19.6    
21.4    
23.2    
25.0    
26.8    
28.6    
30.4    
32.1    
33.9    
35.7    
37.5    
39.3    
41.1    
42.9    
44.6    
46.4    
48.2    
50.0    
51.8    
53.6    
55.4    
57.1    
58.9    
60.7    
62.5    
64.3    
66.1    
67.9    
69.6    
71.4    
73.2    
75.0    
76.8    
78.6    
80.4    
82.1    
83.9    
85.7    
87.5    
89.3    
91.1    
92.9    
94.6    
96.4    
98.2    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 6067, rend_intergenic: 1007  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