-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_680

-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 GlimmerHMM_glimmerT_62114-T1
Couldn't classify 693, 811
Sorry, prediction GeneMark_model.108184_t fails validation.
(TTT)	 AG	693-811	GT	GTG
(GGG)	 AG	838-1041	GT	GTG
(GGG)	 AG	1066-1089	GT	GAG
(GAG)	 AG	1115-1183	GT	CAG
(GGG)	 AG	1295-1333	GT	GGG
(TGG)	 AG	1358-1432	GT	GGG
(TAA)	 AG	1462-1473	GT	AAG
(AAG)	 AG	1496-1534	GT	GGG
(GGA)	 AG	1566-1577	GT	GAG
(GAA)	 AG	1629-1665	GT	ACG
(TTG)	 AG	1935-2119	GT	AGG
(GGC)	 AG	2146-2224	GC	GAG
-recovered GeneMark_model.108184_t, terminal, 2146, 2224
-recovered GeneMark_model.108184_t, internal, 693, 811
-recovered GeneMark_model.108184_t, internal, 838, 1041
-recovered GeneMark_model.108184_t, internal, 1066, 1089
-recovered GeneMark_model.108184_t, internal, 1115, 1183
-recovered GeneMark_model.108184_t, internal, 1295, 1333
-recovered GeneMark_model.108184_t, internal, 1358, 1432
-recovered GeneMark_model.108184_t, internal, 1462, 1473
-recovered GeneMark_model.108184_t, internal, 1496, 1534
-recovered GeneMark_model.108184_t, internal, 1566, 1577
-recovered GeneMark_model.108184_t, internal, 1629, 1665
-recovered GeneMark_model.108184_t, internal, 1935, 2119
-recovered GeneMark_model.108184_t, internal, 2146, 2224
Couldn't classify 4791, 4889
Sorry, prediction GeneMark_model.108186_t fails validation.
(ATG)	 TG	4010-4066	GT	AGG
(CTG)	 AG	4232-4254	GT	CAG
(GGA)	 AG	4311-4481	GC	GGG
(GGA)	 AG	4511-4531	GT	AAG
(GAT)	 AG	4553-4558	GT	AGG
(AAA)	 AG	4586-4600	GT	GAG
(GAG)	 AG	4625-4639	GT	GAG
(GAG)	 AG	4664-4690	GT	GTG
(TCC)	 AG	4791-4889	GT	CGG
-recovered GeneMark_model.108186_t, initial, 4010, 4066
-recovered GeneMark_model.108186_t, internal, 4232, 4254
-recovered GeneMark_model.108186_t, internal, 4311, 4481
-recovered GeneMark_model.108186_t, internal, 4511, 4531
-recovered GeneMark_model.108186_t, internal, 4553, 4558
-recovered GeneMark_model.108186_t, internal, 4586, 4600
-recovered GeneMark_model.108186_t, internal, 4625, 4639
-recovered GeneMark_model.108186_t, internal, 4664, 4690
-recovered GeneMark_model.108186_t, internal, 4791, 4889
Valid prediction for snap_scaffold_680-snap.1-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 snap_scaffold_680-snap.2-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GeneMark_model.108185_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4535, rend_intergenic: 409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5004
-exon list size: 61


building trellis

1.6    
3.2    
4.8    
6.3    
7.9    
9.5    
11.1    
12.7    
14.3    
15.9    
17.5    
19.0    
20.6    
22.2    
23.8    
25.4    
27.0    
28.6    
30.2    
31.7    
33.3    
34.9    
36.5    
38.1    
39.7    
41.3    
42.9    
44.4    
46.0    
47.6    
49.2    
50.8    
52.4    
54.0    
55.6    
57.1    
58.7    
60.3    
61.9    
63.5    
65.1    
66.7    
68.3    
69.8    
71.4    
73.0    
74.6    
76.2    
77.8    
79.4    
81.0    
82.5    
84.1    
85.7    
87.3    
88.9    
90.5    
92.1    
93.7    
95.2    
96.8    
98.4    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 4535, rend_intergenic: 409  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