-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_784

-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 Augustus_model.g41370.t1
Couldn't classify 1483, 1634
Couldn't classify 3871, 4069
Sorry, prediction snap_scaffold_784-snap.1-T1 fails validation.
(ATT)	 AG	1483-1634	GT	AGG
(TTT)	 AG	3073-3210	GT	TGG
(ATC)	 AG	3871-4069	GT	GGG
-recovered snap_scaffold_784-snap.1-T1, internal, 1483, 1634
-recovered snap_scaffold_784-snap.1-T1, internal, 3073, 3210
-recovered snap_scaffold_784-snap.1-T1, internal, 3871, 4069
Couldn't classify 680, 697
Couldn't classify 3894, 4043
Sorry, prediction GeneMark_model.108374_t fails validation.
(GGT)	 AG	680-697	GT	GGG
(GAG)	 AG	747-797	GT	GGG
(GGT)	 AG	828-851	GT	GGG
(GGG)	 AG	876-896	GT	GGG
(GGG)	 AG	920-931	GT	GGG
(GGT)	 AG	960-1076	GT	GGG
(GGT)	 AG	1107-1131	GT	GGG
(GGA)	 AG	1176-1234	GT	GGG
(AGG)	 AG	1258-1386	GT	CAG
(AGG)	 AG	1512-1538	GT	AGG
(GGC)	 AG	1561-1575	GT	GGG
(AGA)	 AG	1603-1626	GT	AGG
(GGC)	 AG	1652-1681	GT	AAG
(GGA)	 AG	1717-1749	GT	GGG
(GAT)	 AG	1775-1992	GT	GGG
(GTA)	 AG	2348-2354	GT	TGG
(GGA)	 AG	2886-2952	GT	GTG
(TTT)	 AG	3073-3254	GC	AGG
(GGG)	 AG	3276-3323	GT	GAG
(CGC)	 AG	3894-4043	GT	GAG
-recovered GeneMark_model.108374_t, internal, 680, 697
-recovered GeneMark_model.108374_t, internal, 747, 797
-recovered GeneMark_model.108374_t, internal, 828, 851
-recovered GeneMark_model.108374_t, internal, 876, 896
-recovered GeneMark_model.108374_t, internal, 920, 931
-recovered GeneMark_model.108374_t, internal, 960, 1076
-recovered GeneMark_model.108374_t, internal, 1107, 1131
-recovered GeneMark_model.108374_t, internal, 1176, 1234
-recovered GeneMark_model.108374_t, internal, 1258, 1386
-recovered GeneMark_model.108374_t, internal, 1512, 1538
-recovered GeneMark_model.108374_t, internal, 1561, 1575
-recovered GeneMark_model.108374_t, internal, 1603, 1626
-recovered GeneMark_model.108374_t, internal, 1652, 1681
-recovered GeneMark_model.108374_t, internal, 1717, 1749
-recovered GeneMark_model.108374_t, internal, 1775, 1992
-recovered GeneMark_model.108374_t, internal, 2348, 2354
-recovered GeneMark_model.108374_t, internal, 2886, 2952
-recovered GeneMark_model.108374_t, internal, 3073, 3254
-recovered GeneMark_model.108374_t, internal, 3276, 3323
-recovered GeneMark_model.108374_t, internal, 3894, 4043
Couldn't classify 3871, 4069
Sorry, prediction GlimmerHMM_glimmerT_62233-T1 fails validation.
(ATG)	 GA	1608-1634	GT	AGG
(TTT)	 AG	3073-3210	GT	TGG
(ATC)	 AG	3871-4069	GT	GGG
-recovered GlimmerHMM_glimmerT_62233-T1, initial, 1608, 1634
-recovered GlimmerHMM_glimmerT_62233-T1, internal, 3073, 3210
-recovered GlimmerHMM_glimmerT_62233-T1, internal, 3871, 4069

-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 443, 601
Couldn't classify 1262, 1429
Sorry, prediction snap_scaffold_784-snap.2-T1 fails validation.
(GGT)	 AG	443-601	GT	AGG
(GCT)	 AG	1262-1429	GT	GGG
-recovered snap_scaffold_784-snap.2-T1, internal, 443, 601
-recovered snap_scaffold_784-snap.2-T1, internal, 1262, 1429

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4069, rend_intergenic: 3049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4477
-exon list size: 57


building trellis

1.7    
3.4    
5.1    
6.8    
8.5    
10.2    
11.9    
13.6    
15.3    
16.9    
18.6    
20.3    
22.0    
23.7    
25.4    
27.1    
28.8    
30.5    
32.2    
33.9    
35.6    
37.3    
39.0    
40.7    
42.4    
44.1    
45.8    
47.5    
49.2    
50.8    
52.5    
54.2    
55.9    
57.6    
59.3    
61.0    
62.7    
64.4    
66.1    
67.8    
69.5    
71.2    
72.9    
74.6    
76.3    
78.0    
79.7    
81.4    
83.1    
84.7    
86.4    
88.1    
89.8    
91.5    
93.2    
94.9    
96.6    
98.3    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 4069, rend_intergenic: 3049  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