-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_115

-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 snap_scaffold_115-snap.2-T1
Valid prediction for Augustus_model.g39633.t1
Couldn't classify 14247, 14575
Sorry, prediction GlimmerHMM_glimmerT_59819-T1 fails validation.
(ATG)	 TA	4292-4324	GT	CGG
(ATC)	 AG	4670-4900	GT	AGG
(CCG)	 AG	5094-5196	GT	CAG
(ATC)	 AG	8259-8596	GT	AGG
(ATC)	 AG	9083-9313	GT	AGG
(CTG)	 AG	9520-9610	GT	CAG
(CTC)	 AG	10028-10409	GT	AAG
(CCA)	 AG	12565-12880	GT	AGG
(GAG)	 AG	13200-13295	GT	AGG
(ATC)	 AG	13375-13605	GT	AGG
(CCG)	 AG	13800-13902	GT	CAG
(CTC)	 AG	14247-14575	GT	AAG
-recovered GlimmerHMM_glimmerT_59819-T1, initial, 4292, 4324
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 4670, 4900
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 5094, 5196
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 8259, 8596
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 9083, 9313
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 9520, 9610
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 10028, 10409
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 12565, 12880
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 13200, 13295
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 13375, 13605
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 13800, 13902
-recovered GlimmerHMM_glimmerT_59819-T1, internal, 14247, 14575
Valid prediction for GlimmerHMM_glimmerT_59818-T1
Couldn't classify 4060, 4189
Sorry, prediction snap_scaffold_115-snap.1-T1 fails validation.
(TCT)	 AG	4060-4189	GT	AGG
(GAG)	 AG	4495-4590	GT	AGG
(ATC)	 AG	4670-4942	GT	GGG
(AAC)	 AG	4986-5008	GT	AGG
(AAC)	 AG	5078-5196	GT	CAG
(CTC)	 AG	5604-5662	CC	AAC
-recovered snap_scaffold_115-snap.1-T1, terminal, 5604, 5662
-recovered snap_scaffold_115-snap.1-T1, internal, 4060, 4189
-recovered snap_scaffold_115-snap.1-T1, internal, 4495, 4590
-recovered snap_scaffold_115-snap.1-T1, internal, 4670, 4942
-recovered snap_scaffold_115-snap.1-T1, internal, 4986, 5008
-recovered snap_scaffold_115-snap.1-T1, internal, 5078, 5196
Couldn't classify 14247, 14575
Sorry, prediction Augustus_model.g39634.t1 fails validation.
(ATG)	 CA	8345-8596	GT	AGG
(GTG)	 AG	8908-9003	GT	AGG
(ATC)	 AG	9083-9313	GT	AGG
(AAC)	 AG	9400-9422	GT	AGG
(AGC)	 AG	9492-9610	GT	CAG
(CTC)	 AG	10028-10356	GT	AAG
(GAG)	 AG	12707-12880	GT	AGG
(GAG)	 AG	13200-13295	GT	AGG
(ATC)	 AG	13375-13605	GT	AGG
(AAC)	 AG	13692-13714	GT	AGG
(AAC)	 AG	13784-13902	GT	CAG
(CTC)	 AG	14247-14575	GT	AAG
-recovered Augustus_model.g39634.t1, initial, 8345, 8596
-recovered Augustus_model.g39634.t1, internal, 8908, 9003
-recovered Augustus_model.g39634.t1, internal, 9083, 9313
-recovered Augustus_model.g39634.t1, internal, 9400, 9422
-recovered Augustus_model.g39634.t1, internal, 9492, 9610
-recovered Augustus_model.g39634.t1, internal, 10028, 10356
-recovered Augustus_model.g39634.t1, internal, 12707, 12880
-recovered Augustus_model.g39634.t1, internal, 13200, 13295
-recovered Augustus_model.g39634.t1, internal, 13375, 13605
-recovered Augustus_model.g39634.t1, internal, 13692, 13714
-recovered Augustus_model.g39634.t1, internal, 13784, 13902
-recovered Augustus_model.g39634.t1, internal, 14247, 14575

-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_115-snap.3-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11096, rend_intergenic: 9951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 14832
-exon list size: 44


building trellis

2.2    
4.3    
6.5    
8.7    
10.9    
13.0    
15.2    
17.4    
19.6    
21.7    
23.9    
26.1    
28.3    
30.4    
32.6    
34.8    
37.0    
39.1    
41.3    
43.5    
45.7    
47.8    
50.0    
52.2    
54.3    
56.5    
58.7    
60.9    
63.0    
65.2    
67.4    
69.6    
71.7    
73.9    
76.1    
78.3    
80.4    
82.6    
84.8    
87.0    
89.1    
91.3    
93.5    
95.7    
97.8    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 11096, rend_intergenic: 9951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support