-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_892

-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 56, 255
Couldn't classify 3255, 3496
Sorry, prediction snap_scaffold_892-snap.2-T1 fails validation.
(CGG)	 AG	56-255	GT	GTG
(AGT)	 AG	718-821	GT	TGG
(GCT)	 AG	1445-1557	GT	GGG
(TTG)	 AG	2367-2591	GT	AGG
(ATG)	 AG	3255-3496	GT	TTG
-recovered snap_scaffold_892-snap.2-T1, initial, 3255, 3496
-recovered snap_scaffold_892-snap.2-T1, internal, 56, 255
-recovered snap_scaffold_892-snap.2-T1, internal, 718, 821
-recovered snap_scaffold_892-snap.2-T1, internal, 1445, 1557
-recovered snap_scaffold_892-snap.2-T1, internal, 2367, 2591
-recovered snap_scaffold_892-snap.2-T1, internal, 3255, 3496
Couldn't classify 56, 255
Sorry, prediction Augustus_model.g41423.t1 fails validation.
(CGG)	 AG	56-255	GT	GTG
(AGT)	 AG	718-821	GT	TGG
(GCT)	 AG	1445-1557	GT	GGG
(TTG)	 AG	2367-2591	GT	AGG
(GTG)	 AG	2680-2754	GT	AGG
(ATG)	 AG	3255-3500	GT	GAG
add_exon() Sorry, Augustus_model.g41423.t1 3255-3500-initial-1 is invalid.
-recovered Augustus_model.g41423.t1, initial, 3255, 3500
-recovered Augustus_model.g41423.t1, terminal, 3255, 3500
-recovered Augustus_model.g41423.t1, internal, 56, 255
-recovered Augustus_model.g41423.t1, internal, 718, 821
-recovered Augustus_model.g41423.t1, internal, 1445, 1557
-recovered Augustus_model.g41423.t1, internal, 2367, 2591
-recovered Augustus_model.g41423.t1, internal, 2680, 2754
-recovered Augustus_model.g41423.t1, internal, 3255, 3500
Valid prediction for GeneMark_model.108560_t
Valid prediction for GlimmerHMM_glimmerT_62319-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 3890, 4002
Sorry, prediction snap_scaffold_892-snap.1-T1 fails validation.
(ATG)	 GG	977-1136	GT	GGG
(GGA)	 AG	1215-1288	GT	GCG
(GCT)	 AG	1465-1627	GT	GGG
(GTG)	 AG	1666-1709	GT	AGG
(CCA)	 AG	3890-4002	GT	AGG
-recovered snap_scaffold_892-snap.1-T1, initial, 977, 1136
-recovered snap_scaffold_892-snap.1-T1, internal, 1215, 1288
-recovered snap_scaffold_892-snap.1-T1, internal, 1465, 1627
-recovered snap_scaffold_892-snap.1-T1, internal, 1666, 1709
-recovered snap_scaffold_892-snap.1-T1, internal, 3890, 4002
Couldn't classify 3869, 4025
Sorry, prediction GeneMark_model.108559_t fails validation.
(ATG)	 GC	3210-3253	GT	GGG
(AGA)	 AG	3356-3403	GC	AGG
(GGG)	 AG	3429-3554	GT	GAG
(AAA)	 AG	3580-3618	GT	AAG
(AGT)	 AG	3644-3670	GT	GAG
(AGA)	 AG	3755-3782	GT	AGG
(GAG)	 AG	3804-3844	GT	AAG
(GGG)	 AG	3869-4025	GC	CTG
-recovered GeneMark_model.108559_t, initial, 3210, 3253
-recovered GeneMark_model.108559_t, internal, 3356, 3403
-recovered GeneMark_model.108559_t, internal, 3429, 3554
-recovered GeneMark_model.108559_t, internal, 3580, 3618
-recovered GeneMark_model.108559_t, internal, 3644, 3670
-recovered GeneMark_model.108559_t, internal, 3755, 3782
-recovered GeneMark_model.108559_t, internal, 3804, 3844
-recovered GeneMark_model.108559_t, internal, 3869, 4025
Couldn't classify 601, 711
Sorry, prediction GeneMark_model.108561_t fails validation.
(AGA)	 AG	601-711	GT	CTG
(AGT)	 AG	763-798	GT	GAG
(GAG)	 AG	824-940	GT	GGG
(GAG)	 AG	984-1097	GT	GGG
(GAG)	 AG	1121-1172	GT	AGG
(GGA)	 AG	1215-1229	CT	GAC
-recovered GeneMark_model.108561_t, terminal, 1215, 1229
-recovered GeneMark_model.108561_t, internal, 601, 711
-recovered GeneMark_model.108561_t, internal, 763, 798
-recovered GeneMark_model.108561_t, internal, 824, 940
-recovered GeneMark_model.108561_t, internal, 984, 1097
-recovered GeneMark_model.108561_t, internal, 1121, 1172

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3070, rend_intergenic: 56  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4046
-exon list size: 50


building trellis

1.9    
3.8    
5.8    
7.7    
9.6    
11.5    
13.5    
15.4    
17.3    
19.2    
21.2    
23.1    
25.0    
26.9    
28.8    
30.8    
32.7    
34.6    
36.5    
38.5    
40.4    
42.3    
44.2    
46.2    
48.1    
50.0    
51.9    
53.8    
55.8    
57.7    
59.6    
61.5    
63.5    
65.4    
67.3    
69.2    
71.2    
73.1    
75.0    
76.9    
78.8    
80.8    
82.7    
84.6    
86.5    
88.5    
90.4    
92.3    
94.2    
96.2    
98.1    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 3070, rend_intergenic: 56  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