-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_888

-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 3788, 3993
Sorry, prediction snap_scaffold_888-snap.1-T1 fails validation.
(ATG)	 AG	631-988	GT	AGG
(GAG)	 AG	3788-3993	GT	AAG
add_exon() Sorry, snap_scaffold_888-snap.1-T1 631-988-initial-1 is invalid.
-recovered snap_scaffold_888-snap.1-T1, initial, 631, 988
-recovered snap_scaffold_888-snap.1-T1, internal, 631, 988
-recovered snap_scaffold_888-snap.1-T1, internal, 3788, 3993
Couldn't classify 4028, 4050
Sorry, prediction GeneMark_model.108554_t fails validation.
(ATG)	 CA	3283-3291	GT	CAG
(AGG)	 AG	3764-3909	GT	GGG
(GTC)	 AG	3934-3993	GT	AAG
(GAG)	 AG	4028-4050	GT	CAG
-recovered GeneMark_model.108554_t, initial, 3283, 3291
-recovered GeneMark_model.108554_t, internal, 3764, 3909
-recovered GeneMark_model.108554_t, internal, 3934, 3993
-recovered GeneMark_model.108554_t, internal, 4028, 4050
Couldn't classify 45, 143
Sorry, prediction GeneMark_model.108552_t fails validation.
(GGA)	 AG	45-143	GT	GGG
(TGA)	 AG	521-532	GT	CTG
(GGA)	 AG	677-682	GT	GTG
(TCT)	 AG	719-793	GT	AGG
(GTG)	 AG	815-832	GT	AGG
(TCT)	 AG	854-895	GT	AGG
(TCT)	 AG	916-996	GT	GAG
(GGA)	 AG	1020-1047	GG	GAG
-recovered GeneMark_model.108552_t, terminal, 1020, 1047
-recovered GeneMark_model.108552_t, internal, 45, 143
-recovered GeneMark_model.108552_t, internal, 521, 532
-recovered GeneMark_model.108552_t, internal, 677, 682
-recovered GeneMark_model.108552_t, internal, 719, 793
-recovered GeneMark_model.108552_t, internal, 815, 832
-recovered GeneMark_model.108552_t, internal, 854, 895
-recovered GeneMark_model.108552_t, internal, 916, 996
Valid prediction for GlimmerHMM_glimmerT_62317-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: -)Valid prediction for GeneMark_model.108553_t
Couldn't classify 78, 164
Couldn't classify 1719, 1812
Sorry, prediction snap_scaffold_888-snap.2-T1 fails validation.
(TTC)	 AG	78-164	GT	CTG
(CGG)	 AG	1064-1152	GT	TAG
(CTT)	 AG	1465-1634	GT	GGG
(GCG)	 AG	1719-1812	GT	AGG
-recovered snap_scaffold_888-snap.2-T1, internal, 78, 164
-recovered snap_scaffold_888-snap.2-T1, internal, 1064, 1152
-recovered snap_scaffold_888-snap.2-T1, internal, 1465, 1634
-recovered snap_scaffold_888-snap.2-T1, internal, 1719, 1812

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3993, rend_intergenic: 2247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4058
-exon list size: 42


building trellis

2.3    
4.5    
6.8    
9.1    
11.4    
13.6    
15.9    
18.2    
20.5    
22.7    
25.0    
27.3    
29.5    
31.8    
34.1    
36.4    
38.6    
40.9    
43.2    
45.5    
47.7    
50.0    
52.3    
54.5    
56.8    
59.1    
61.4    
63.6    
65.9    
68.2    
70.5    
72.7    
75.0    
77.3    
79.5    
81.8    
84.1    
86.4    
88.6    
90.9    
93.2    
95.5    
97.7    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 3993, rend_intergenic: 2247  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