-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_695

-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 3489, 3548
Sorry, prediction snap_scaffold_695-snap.2-T1 fails validation.
(ACG)	 AG	3489-3548	GT	CCG
(GAC)	 AG	4570-4906	CA	GAC
-recovered snap_scaffold_695-snap.2-T1, terminal, 4570, 4906
-recovered snap_scaffold_695-snap.2-T1, internal, 3489, 3548
Couldn't classify 4411, 4503
Sorry, prediction GlimmerHMM_glimmerT_62131-T1 fails validation.
(ATG)	 TC	3464-3548	GT	CCG
(GTC)	 AG	4411-4503	GT	ATG
-recovered GlimmerHMM_glimmerT_62131-T1, initial, 3464, 3548
-recovered GlimmerHMM_glimmerT_62131-T1, internal, 4411, 4503
Valid prediction for GeneMark_model.108217_t

-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_695-snap.1-T1
Valid prediction for GlimmerHMM_glimmerT_62129-T1
Couldn't classify 4840, 4896
Sorry, prediction GeneMark_model.108216_t fails validation.
(ATG)	 AC	1759-1800	GT	AGG
(TCT)	 AG	1856-1866	GT	AGG
(AGA)	 AG	1990-2001	GC	AGG
(TGT)	 AG	2024-2107	GC	GGG
(AGA)	 AG	2201-2383	GT	GGG
(GAC)	 AG	2476-2559	GC	AGG
(AAC)	 AG	2589-2651	GT	AAG
(AAA)	 AG	2678-2824	GT	AGG
(AAG)	 AG	2845-2922	GT	AAG
(GGG)	 AG	3010-3087	GT	GCG
(GAA)	 AG	3240-3245	GT	CGG
(AGC)	 AG	4840-4896	GT	CTG
-recovered GeneMark_model.108216_t, initial, 1759, 1800
add_exon() Sorry, GeneMark_model.108216_t 1856-1866-terminal-2 is invalid.
-recovered GeneMark_model.108216_t, terminal, 1856, 1866
add_exon() Sorry, GeneMark_model.108216_t 2845-2922-terminal-1 is invalid.
-recovered GeneMark_model.108216_t, terminal, 2845, 2922
-recovered GeneMark_model.108216_t, internal, 1856, 1866
-recovered GeneMark_model.108216_t, internal, 1990, 2001
-recovered GeneMark_model.108216_t, internal, 2024, 2107
-recovered GeneMark_model.108216_t, internal, 2201, 2383
-recovered GeneMark_model.108216_t, internal, 2476, 2559
-recovered GeneMark_model.108216_t, internal, 2589, 2651
-recovered GeneMark_model.108216_t, internal, 2678, 2824
-recovered GeneMark_model.108216_t, internal, 2845, 2922
-recovered GeneMark_model.108216_t, internal, 3010, 3087
-recovered GeneMark_model.108216_t, internal, 3240, 3245
-recovered GeneMark_model.108216_t, internal, 4840, 4896
Couldn't classify 39, 47
Sorry, prediction GeneMark_model.108218_t fails validation.
(CTC)	 AG	39-47	GT	ATG
(ATG)	 AG	80-243	CC	AGC
-recovered GeneMark_model.108218_t, terminal, 80, 243
-recovered GeneMark_model.108218_t, internal, 39, 47
Valid prediction for GlimmerHMM_glimmerT_62130-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4398, rend_intergenic: 3489  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4954
-exon list size: 41


building trellis

2.3    
4.7    
7.0    
9.3    
11.6    
14.0    
16.3    
18.6    
20.9    
23.3    
25.6    
27.9    
30.2    
32.6    
34.9    
37.2    
39.5    
41.9    
44.2    
46.5    
48.8    
51.2    
53.5    
55.8    
58.1    
60.5    
62.8    
65.1    
67.4    
69.8    
72.1    
74.4    
76.7    
79.1    
81.4    
83.7    
86.0    
88.4    
90.7    
93.0    
95.3    
97.7    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 4398, rend_intergenic: 3489  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