-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_628

-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 5111, 5223
Sorry, prediction snap_scaffold_628-snap.2-T1 fails validation.
(ATG)	 CC	3212-3257	GT	CGG
(CCG)	 AG	3293-3366	GT	CTG
(CCG)	 AG	3650-3835	GT	ACG
(GTG)	 AG	5111-5223	GT	GGG
-recovered snap_scaffold_628-snap.2-T1, initial, 3212, 3257
-recovered snap_scaffold_628-snap.2-T1, internal, 3293, 3366
-recovered snap_scaffold_628-snap.2-T1, internal, 3650, 3835
-recovered snap_scaffold_628-snap.2-T1, internal, 5111, 5223

-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 336, 424
Sorry, prediction GlimmerHMM_glimmerT_62065-T1 fails validation.
(AGG)	 AG	336-424	GT	AGG
(GGC)	 AG	4433-4876	AG	AGA
-recovered GlimmerHMM_glimmerT_62065-T1, terminal, 4433, 4876
-recovered GlimmerHMM_glimmerT_62065-T1, internal, 336, 424
Valid prediction for Augustus_model.g41255.t1
Couldn't classify 775, 929
Sorry, prediction snap_scaffold_628-snap.3-T1 fails validation.
(CGT)	 AG	775-929	GT	AAG
(CCA)	 AG	1522-1614	CA	GAC
-recovered snap_scaffold_628-snap.3-T1, terminal, 1522, 1614
-recovered snap_scaffold_628-snap.3-T1, internal, 775, 929
Couldn't classify 4433, 4821
Sorry, prediction snap_scaffold_628-snap.1-T1 fails validation.
(ATG)	 CA	1627-1659	GT	AGG
(AAG)	 AG	2022-2179	GT	GTG
(CCT)	 AG	4287-4404	GT	TGG
(GGC)	 AG	4433-4821	GT	ACG
-recovered snap_scaffold_628-snap.1-T1, initial, 1627, 1659
-recovered snap_scaffold_628-snap.1-T1, internal, 2022, 2179
-recovered snap_scaffold_628-snap.1-T1, internal, 4287, 4404
-recovered snap_scaffold_628-snap.1-T1, internal, 4433, 4821
Couldn't classify 75, 191
Couldn't classify 4894, 5031
Sorry, prediction GeneMark_model.108080_t fails validation.
(GAG)	 AG	75-191	GT	GCG
(CTA)	 AG	445-481	GT	AGG
(CCG)	 AG	580-615	GT	ATG
(AGA)	 AG	1352-1384	GT	GAG
(AGA)	 AG	1695-1769	GT	GAG
(AAG)	 AG	1805-1899	GT	TGG
(AGC)	 AG	4292-4404	GT	TGG
(GGC)	 AG	4433-4515	GT	GTG
(GCT)	 AG	4702-4821	GT	ACG
(AAA)	 AG	4894-5031	GT	GCG
-recovered GeneMark_model.108080_t, internal, 75, 191
-recovered GeneMark_model.108080_t, internal, 445, 481
-recovered GeneMark_model.108080_t, internal, 580, 615
-recovered GeneMark_model.108080_t, internal, 1352, 1384
-recovered GeneMark_model.108080_t, internal, 1695, 1769
-recovered GeneMark_model.108080_t, internal, 1805, 1899
-recovered GeneMark_model.108080_t, internal, 4292, 4404
-recovered GeneMark_model.108080_t, internal, 4433, 4515
-recovered GeneMark_model.108080_t, internal, 4702, 4821
-recovered GeneMark_model.108080_t, internal, 4894, 5031

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3696, rend_intergenic: 3212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5223, rend_intergenic: 3709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5322
-exon list size: 32


building trellis

2.9    
5.9    
8.8    
11.8    
14.7    
17.6    
20.6    
23.5    
26.5    
29.4    
32.4    
35.3    
38.2    
41.2    
44.1    
47.1    
50.0    
52.9    
55.9    
58.8    
61.8    
64.7    
67.6    
70.6    
73.5    
76.5    
79.4    
82.4    
85.3    
88.2    
91.2    
94.1    
97.1    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 3696, rend_intergenic: 3212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5223, rend_intergenic: 3709  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