-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_879

-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 76, 165
Sorry, prediction snap_scaffold_879-snap.1-T1 fails validation.
(CCA)	 AG	76-165	GT	CAG
(CGC)	 AG	493-764	GT	CCG
(TTG)	 AG	820-889	GT	AGG
(ACG)	 AG	1801-1925	AG	GAA
-recovered snap_scaffold_879-snap.1-T1, terminal, 1801, 1925
-recovered snap_scaffold_879-snap.1-T1, internal, 76, 165
-recovered snap_scaffold_879-snap.1-T1, internal, 493, 764
-recovered snap_scaffold_879-snap.1-T1, internal, 820, 889
Valid prediction for GlimmerHMM_glimmerT_62311-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62311-T1 493-776-terminal-1 is invalid.
Couldn't classify 76, 165
Sorry, prediction Augustus_model.g41417.t1 fails validation.
(CCA)	 AG	76-165	GT	CAG
(CGC)	 AG	493-776	CA	AAC
-recovered Augustus_model.g41417.t1, terminal, 493, 776
-recovered Augustus_model.g41417.t1, internal, 76, 165
Couldn't classify 76, 165
Sorry, prediction GeneMark_model.108540_t fails validation.
(CCA)	 AG	76-165	GT	CAG
(CGC)	 AG	493-620	GT	AGG
(GTT)	 AG	675-776	CA	AAC
-recovered GeneMark_model.108540_t, terminal, 675, 776
-recovered GeneMark_model.108540_t, internal, 76, 165
-recovered GeneMark_model.108540_t, internal, 493, 620
Valid prediction for GeneMark_model.108542_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 2003, 2345
Sorry, prediction snap_scaffold_879-snap.2-T1 fails validation.
(GAG)	 AG	2003-2345	GT	AGG
(CAG)	 AG	2826-3180	GT	GCG
(AAC)	 AG	3399-3473	CC	AGC
-recovered snap_scaffold_879-snap.2-T1, terminal, 3399, 3473
-recovered snap_scaffold_879-snap.2-T1, internal, 2003, 2345
-recovered snap_scaffold_879-snap.2-T1, internal, 2826, 3180
Valid prediction for GeneMark_model.108541_t
Valid prediction for GlimmerHMM_glimmerT_62312-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62312-T1 2003-2349-terminal-1 is invalid.
Valid prediction for Augustus_model.g41418.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 1925, rend_intergenic: 631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4103
-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: 1925, rend_intergenic: 631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

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