-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_358

-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 7485, 7568
Sorry, prediction GlimmerHMM_glimmerT_61749-T1 fails validation.
(ATG)	 GC	1199-1396	GT	AGG
(AAG)	 AG	7485-7568	GT	ATG
-recovered GlimmerHMM_glimmerT_61749-T1, initial, 1199, 1396
-recovered GlimmerHMM_glimmerT_61749-T1, internal, 7485, 7568
Couldn't classify 7492, 7585
Sorry, prediction snap_scaffold_358-snap.3-T1 fails validation.
(ATG)	 GG	5157-5301	GT	TAG
(AGG)	 AG	7492-7585	GT	GGG
-recovered snap_scaffold_358-snap.3-T1, initial, 5157, 5301
-recovered snap_scaffold_358-snap.3-T1, internal, 7492, 7585
Valid prediction for GeneMark_model.107409_t
Couldn't classify 1147, 1396
Sorry, prediction snap_scaffold_358-snap.2-T1 fails validation.
(ACC)	 AG	1147-1396	GT	AGG
(CTA)	 AG	2393-2737	GT	AGG
(GCA)	 AG	4789-5151	GA	AGG
-recovered snap_scaffold_358-snap.2-T1, terminal, 4789, 5151
-recovered snap_scaffold_358-snap.2-T1, internal, 1147, 1396
-recovered snap_scaffold_358-snap.2-T1, internal, 2393, 2737
Valid prediction for GeneMark_model.107407_t
Couldn't classify 256, 307
Sorry, prediction Augustus_model.g41045.t1 fails validation.
(TCG)	 AG	256-307	GT	CCG
(AGA)	 AG	757-833	GT	CCG
(ACC)	 AG	1147-1426	GC	GAG
-recovered Augustus_model.g41045.t1, terminal, 1147, 1426
-recovered Augustus_model.g41045.t1, internal, 256, 307
-recovered Augustus_model.g41045.t1, internal, 757, 833
-recovered Augustus_model.g41045.t1, internal, 1147, 1426
Valid prediction for GeneMark_model.107408_t

-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 7024, 7056
Sorry, prediction GeneMark_model.107406_t fails validation.
(ATG)	 CG	6417-6610	GT	CTG
(GAA)	 AG	6661-6808	GT	CCG
(TTG)	 AG	6835-6845	GT	CTG
(GGT)	 AG	6945-6980	GT	TGG
(CCA)	 AG	7024-7056	GT	GAG
-recovered GeneMark_model.107406_t, initial, 6417, 6610
-recovered GeneMark_model.107406_t, internal, 6661, 6808
-recovered GeneMark_model.107406_t, internal, 6835, 6845
-recovered GeneMark_model.107406_t, internal, 6945, 6980
-recovered GeneMark_model.107406_t, internal, 7024, 7056
Couldn't classify 5350, 5368
Couldn't classify 6835, 6980
Sorry, prediction snap_scaffold_358-snap.1-T1 fails validation.
(AGA)	 AG	5350-5368	GT	AGG
(CCT)	 AG	6331-6722	GT	ACG
(TTG)	 AG	6835-6980	GT	TGG
-recovered snap_scaffold_358-snap.1-T1, internal, 5350, 5368
-recovered snap_scaffold_358-snap.1-T1, internal, 6331, 6722
-recovered snap_scaffold_358-snap.1-T1, internal, 6835, 6980
Valid prediction for GeneMark_model.107410_t
Couldn't classify 416, 529
Sorry, prediction GeneMark_model.107411_t fails validation.
(GGG)	 AG	416-529	GT	AGG
(AGA)	 AG	562-624	GT	AGG
(AGA)	 AG	649-685	GT	AGG
-recovered GeneMark_model.107411_t, terminal, 649, 685
-recovered GeneMark_model.107411_t, internal, 416, 529
-recovered GeneMark_model.107411_t, internal, 562, 624
-recovered GeneMark_model.107411_t, internal, 649, 685

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2441, rend_intergenic: 1147  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7790
-exon list size: 67


building trellis

1.4    
2.9    
4.3    
5.8    
7.2    
8.7    
10.1    
11.6    
13.0    
14.5    
15.9    
17.4    
18.8    
20.3    
21.7    
23.2    
24.6    
26.1    
27.5    
29.0    
30.4    
31.9    
33.3    
34.8    
36.2    
37.7    
39.1    
40.6    
42.0    
43.5    
44.9    
46.4    
47.8    
49.3    
50.7    
52.2    
53.6    
55.1    
56.5    
58.0    
59.4    
60.9    
62.3    
63.8    
65.2    
66.7    
68.1    
69.6    
71.0    
72.5    
73.9    
75.4    
76.8    
78.3    
79.7    
81.2    
82.6    
84.1    
85.5    
87.0    
88.4    
89.9    
91.3    
92.8    
94.2    
95.7    
97.1    
98.6    
-found 5 predictions from path traversal
Error with prediction: snap lend_intergenic: 2441, rend_intergenic: 1147  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