-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_492

-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 5733, 5793
Sorry, prediction GeneMark_model.107785_t fails validation.
(ATG)	 AG	2618-2646	GT	AGG
(GGA)	 AG	2668-2679	GT	AGG
(GAG)	 AG	2704-2712	GT	GGG
(AGA)	 AG	2737-2745	GT	AGG
(GGT)	 AG	2772-2939	GT	GGG
(AGA)	 AG	4718-4861	GT	ATG
(CTT)	 AG	5337-5357	GT	AGG
(GAG)	 AG	5384-5423	GT	ACG
(ATC)	 AG	5481-5569	GT	GAG
(AGA)	 AG	5611-5619	GT	GAG
(CAA)	 AG	5643-5663	GT	GAG
(TGA)	 AG	5699-5707	GT	GTG
(AGA)	 AG	5733-5793	GT	ACG
-recovered GeneMark_model.107785_t, initial, 2618, 2646
-recovered GeneMark_model.107785_t, terminal, 2737, 2745
-recovered GeneMark_model.107785_t, internal, 2618, 2646
-recovered GeneMark_model.107785_t, internal, 2668, 2679
-recovered GeneMark_model.107785_t, internal, 2704, 2712
-recovered GeneMark_model.107785_t, internal, 2737, 2745
-recovered GeneMark_model.107785_t, internal, 2772, 2939
-recovered GeneMark_model.107785_t, internal, 4718, 4861
-recovered GeneMark_model.107785_t, internal, 5337, 5357
-recovered GeneMark_model.107785_t, internal, 5384, 5423
-recovered GeneMark_model.107785_t, internal, 5481, 5569
-recovered GeneMark_model.107785_t, internal, 5611, 5619
-recovered GeneMark_model.107785_t, internal, 5643, 5663
-recovered GeneMark_model.107785_t, internal, 5699, 5707
-recovered GeneMark_model.107785_t, internal, 5733, 5793
Couldn't classify 5900, 5984
Sorry, prediction GlimmerHMM_glimmerT_61915-T1 fails validation.
(ATG)	 CC	3483-3667	GT	TGG
(CAA)	 AG	5900-5984	GT	AGG
-recovered GlimmerHMM_glimmerT_61915-T1, initial, 3483, 3667
-recovered GlimmerHMM_glimmerT_61915-T1, internal, 5900, 5984
Couldn't classify 349, 412
Sorry, prediction snap_scaffold_492-snap.2-T1 fails validation.
(AAA)	 AG	349-412	GT	CTG
(GTA)	 AG	2582-2646	GT	AGG
(GAG)	 AG	3261-3335	CA	AAC
-recovered snap_scaffold_492-snap.2-T1, terminal, 3261, 3335
-recovered snap_scaffold_492-snap.2-T1, internal, 349, 412
-recovered snap_scaffold_492-snap.2-T1, internal, 2582, 2646
Valid prediction for snap_scaffold_492-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_61914-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 2864, 3041
Couldn't classify 6292, 6372
Sorry, prediction snap_scaffold_492-snap.1-T1 fails validation.
(ATC)	 AG	2864-3041	GT	ATG
(AAA)	 AG	5560-5623	GT	CTG
(ACA)	 AG	6292-6372	GT	ATG
-recovered snap_scaffold_492-snap.1-T1, internal, 2864, 3041
-recovered snap_scaffold_492-snap.1-T1, internal, 5560, 5623
-recovered snap_scaffold_492-snap.1-T1, internal, 6292, 6372
Couldn't classify 6408, 6457
Sorry, prediction GeneMark_model.107784_t fails validation.
(ATG)	 TG	5575-5627	GT	GAG
(CCA)	 AG	6332-6382	GT	ATG
(GAG)	 AG	6408-6457	GT	AAG
-recovered GeneMark_model.107784_t, initial, 5575, 5627
-recovered GeneMark_model.107784_t, internal, 6332, 6382
-recovered GeneMark_model.107784_t, internal, 6408, 6457

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3650, rend_intergenic: 349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 6513
-exon list size: 49


building trellis

2.0    
3.9    
5.9    
7.8    
9.8    
11.8    
13.7    
15.7    
17.6    
19.6    
21.6    
23.5    
25.5    
27.5    
29.4    
31.4    
33.3    
35.3    
37.3    
39.2    
41.2    
43.1    
45.1    
47.1    
49.0    
51.0    
52.9    
54.9    
56.9    
58.8    
60.8    
62.7    
64.7    
66.7    
68.6    
70.6    
72.5    
74.5    
76.5    
78.4    
80.4    
82.4    
84.3    
86.3    
88.2    
90.2    
92.2    
94.1    
96.1    
98.0    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 3650, rend_intergenic: 349  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