-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_834

-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 2649, 2726
Couldn't classify 4199, 4264
Sorry, prediction GeneMark_model.108456_t fails validation.
(GAG)	 AG	2649-2726	GT	GAG
(AGG)	 AG	2750-2800	GT	AGG
(AGA)	 AG	2983-3027	GT	AGG
(AGA)	 AG	3053-3079	GT	AGG
(AGA)	 AG	3105-3173	GT	AGG
(AGA)	 AG	3203-3378	GT	GGG
(GAG)	 AG	3411-3426	GC	GAG
(AGA)	 AG	3450-3545	GT	GAG
(GAG)	 AG	3631-3639	GT	AGG
(GGT)	 AG	3662-3667	GT	AGG
(AGG)	 AG	3707-3715	GT	GGG
(GAG)	 AG	3746-3754	GT	AGG
(GGT)	 AG	3779-3784	GT	AGG
(GGG)	 AG	3805-3816	GT	GGG
(GAC)	 AG	3850-3858	GT	GGG
(CCA)	 AG	4010-4090	GT	GGG
(AGA)	 AG	4199-4264	GT	AGG
-recovered GeneMark_model.108456_t, terminal, 3450, 3545
-recovered GeneMark_model.108456_t, internal, 2649, 2726
-recovered GeneMark_model.108456_t, internal, 2750, 2800
-recovered GeneMark_model.108456_t, internal, 2983, 3027
-recovered GeneMark_model.108456_t, internal, 3053, 3079
-recovered GeneMark_model.108456_t, internal, 3105, 3173
-recovered GeneMark_model.108456_t, internal, 3203, 3378
-recovered GeneMark_model.108456_t, internal, 3411, 3426
-recovered GeneMark_model.108456_t, internal, 3450, 3545
-recovered GeneMark_model.108456_t, internal, 3631, 3639
-recovered GeneMark_model.108456_t, internal, 3662, 3667
-recovered GeneMark_model.108456_t, internal, 3707, 3715
-recovered GeneMark_model.108456_t, internal, 3746, 3754
-recovered GeneMark_model.108456_t, internal, 3779, 3784
-recovered GeneMark_model.108456_t, internal, 3805, 3816
-recovered GeneMark_model.108456_t, internal, 3850, 3858
-recovered GeneMark_model.108456_t, internal, 4010, 4090
-recovered GeneMark_model.108456_t, internal, 4199, 4264
Couldn't classify 4008, 4070
Sorry, prediction snap_scaffold_834-snap.1-T1 fails validation.
(ATG)	 TA	2385-2402	GT	CTG
(GGA)	 AG	2624-2800	GT	AGG
(AGC)	 AG	4008-4070	GT	AGG
-recovered snap_scaffold_834-snap.1-T1, initial, 2385, 2402
-recovered snap_scaffold_834-snap.1-T1, internal, 2624, 2800
-recovered snap_scaffold_834-snap.1-T1, internal, 4008, 4070

-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 179, 287
Sorry, prediction snap_scaffold_834-snap.2-T1 fails validation.
(GAG)	 AG	179-287	GT	AGG
(GCA)	 AG	684-771	GT	GTG
(GCC)	 AG	1661-1729	GT	TGG
(AAA)	 AG	1847-1876	CA	GAC
-recovered snap_scaffold_834-snap.2-T1, terminal, 1847, 1876
-recovered snap_scaffold_834-snap.2-T1, internal, 179, 287
-recovered snap_scaffold_834-snap.2-T1, internal, 684, 771
-recovered snap_scaffold_834-snap.2-T1, internal, 1661, 1729
Valid prediction for HiQ_model.g41395.t1
Couldn't classify 179, 287
Sorry, prediction GlimmerHMM_glimmerT_62279-T1 fails validation.
(GAG)	 AG	179-287	GT	AGG
(GCA)	 AG	684-771	GT	GTG
(GCC)	 AG	1661-1759	CT	AAC
-recovered GlimmerHMM_glimmerT_62279-T1, terminal, 1661, 1759
-recovered GlimmerHMM_glimmerT_62279-T1, internal, 179, 287
-recovered GlimmerHMM_glimmerT_62279-T1, internal, 684, 771

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4070, rend_intergenic: 2404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4279
-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: 4070, rend_intergenic: 2404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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