-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_542

-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: +)Valid prediction for GeneMark_model.107900_t
Valid prediction for snap_scaffold_542-snap.2-T1
Valid prediction for snap_scaffold_542-snap.3-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 5600, 5633
Sorry, prediction GeneMark_model.107899_t fails validation.
(ATG)	 GC	4533-4552	GT	AGG
(GGA)	 AG	4683-4787	GT	ATG
(AGG)	 AG	4820-4852	GT	GAG
(AGA)	 AG	4894-4977	GT	AGG
(AGA)	 AG	4999-5010	GT	AGG
(AGC)	 AG	5038-5058	GT	GGG
(GGG)	 AG	5082-5093	GT	AGG
(TAG)	 AG	5116-5184	GT	AGG
(CAA)	 AG	5207-5218	GT	AGG
(AGA)	 AG	5239-5319	GT	AGG
(GTT)	 AG	5348-5386	GT	AGG
(GCA)	 AG	5410-5418	GT	GAG
(AGA)	 AG	5443-5472	GT	AGG
(GGA)	 AG	5505-5567	GT	GGG
(AGA)	 AG	5600-5633	GT	CAG
-recovered GeneMark_model.107899_t, initial, 4533, 4552
-recovered GeneMark_model.107899_t, internal, 4683, 4787
-recovered GeneMark_model.107899_t, internal, 4820, 4852
-recovered GeneMark_model.107899_t, internal, 4894, 4977
-recovered GeneMark_model.107899_t, internal, 4999, 5010
-recovered GeneMark_model.107899_t, internal, 5038, 5058
-recovered GeneMark_model.107899_t, internal, 5082, 5093
-recovered GeneMark_model.107899_t, internal, 5116, 5184
-recovered GeneMark_model.107899_t, internal, 5207, 5218
-recovered GeneMark_model.107899_t, internal, 5239, 5319
-recovered GeneMark_model.107899_t, internal, 5348, 5386
-recovered GeneMark_model.107899_t, internal, 5410, 5418
-recovered GeneMark_model.107899_t, internal, 5443, 5472
-recovered GeneMark_model.107899_t, internal, 5505, 5567
-recovered GeneMark_model.107899_t, internal, 5600, 5633
Couldn't classify 1193, 1298
Couldn't classify 4663, 4899
Sorry, prediction snap_scaffold_542-snap.1-T1 fails validation.
(TGG)	 AG	1193-1298	GT	GCG
(AGC)	 AG	3828-4015	GT	AGG
(AGA)	 AG	4663-4899	GT	TGG
-recovered snap_scaffold_542-snap.1-T1, internal, 1193, 1298
-recovered snap_scaffold_542-snap.1-T1, internal, 3828, 4015
-recovered snap_scaffold_542-snap.1-T1, internal, 4663, 4899
Couldn't classify 476, 571
Sorry, prediction GeneMark_model.107901_t fails validation.
(AGA)	 AG	476-571	GT	GAG
(GCC)	 AG	1122-1160	GT	AGG
(AGA)	 AG	1270-1558	GC	AAG
-recovered GeneMark_model.107901_t, terminal, 1270, 1558
-recovered GeneMark_model.107901_t, internal, 476, 571
-recovered GeneMark_model.107901_t, internal, 1122, 1160
-recovered GeneMark_model.107901_t, internal, 1270, 1558

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4808, rend_intergenic: 2870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 6000
-exon list size: 59


building trellis

1.6    
3.3    
4.9    
6.6    
8.2    
9.8    
11.5    
13.1    
14.8    
16.4    
18.0    
19.7    
21.3    
23.0    
24.6    
26.2    
27.9    
29.5    
31.1    
32.8    
34.4    
36.1    
37.7    
39.3    
41.0    
42.6    
44.3    
45.9    
47.5    
49.2    
50.8    
52.5    
54.1    
55.7    
57.4    
59.0    
60.7    
62.3    
63.9    
65.6    
67.2    
68.9    
70.5    
72.1    
73.8    
75.4    
77.0    
78.7    
80.3    
82.0    
83.6    
85.2    
86.9    
88.5    
90.2    
91.8    
93.4    
95.1    
96.7    
98.4    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 4808, rend_intergenic: 2870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support