-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_611

-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 GeneMark_model.108035_t
Valid prediction for GeneMark_model.108034_t
Valid prediction for snap_scaffold_611-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_62046-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62046-T1 2335-2633-terminal-1 is invalid.

-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 GlimmerHMM_glimmerT_62047-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62047-T1 2168-2324-terminal-1 is invalid.
Couldn't classify 437, 583
Couldn't classify 2825, 2932
Sorry, prediction snap_scaffold_611-snap.1-T1 fails validation.
(GAT)	 AG	437-583	GT	TGG
(GCT)	 AG	2192-2291	GT	CGG
(TTG)	 AG	2825-2932	GT	GGG
-recovered snap_scaffold_611-snap.1-T1, internal, 437, 583
-recovered snap_scaffold_611-snap.1-T1, internal, 2192, 2291
-recovered snap_scaffold_611-snap.1-T1, internal, 2825, 2932
Couldn't classify 11, 131
Sorry, prediction GeneMark_model.108036_t fails validation.
(GAG)	 AG	11-131	GT	CGG
(CTC)	 AG	154-199	GT	CTG
(ATG)	 AG	296-317	GT	GGG
(TGA)	 AG	378-389	GT	ATG
(GAT)	 AG	437-617	CT	GAC
-recovered GeneMark_model.108036_t, initial, 296, 317
-recovered GeneMark_model.108036_t, terminal, 437, 617
-recovered GeneMark_model.108036_t, internal, 11, 131
-recovered GeneMark_model.108036_t, internal, 154, 199
-recovered GeneMark_model.108036_t, internal, 296, 317
-recovered GeneMark_model.108036_t, internal, 378, 389

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4983, rend_intergenic: 3311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5419
-exon list size: 29


building trellis

3.2    
6.5    
9.7    
12.9    
16.1    
19.4    
22.6    
25.8    
29.0    
32.3    
35.5    
38.7    
41.9    
45.2    
48.4    
51.6    
54.8    
58.1    
61.3    
64.5    
67.7    
71.0    
74.2    
77.4    
80.6    
83.9    
87.1    
90.3    
93.5    
96.8    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 4983, rend_intergenic: 3311  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