-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_936

-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 GlimmerHMM_glimmerT_62348-T1
Couldn't classify 163, 207
Couldn't classify 3269, 3460
Sorry, prediction snap_scaffold_936-snap.1-T1 fails validation.
(CCT)	 AG	163-207	GT	TTG
(TGA)	 AG	2084-2772	GT	GAG
(TCT)	 AG	3269-3460	GT	GGG
-recovered snap_scaffold_936-snap.1-T1, internal, 163, 207
-recovered snap_scaffold_936-snap.1-T1, internal, 2084, 2772
-recovered snap_scaffold_936-snap.1-T1, internal, 3269, 3460

-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 476, 676
Sorry, prediction Augustus_model.g41446.t1 fails validation.
(ACG)	 AG	476-676	GT	GGG
(GGC)	 AG	1092-1232	GG	AAG
-recovered Augustus_model.g41446.t1, terminal, 1092, 1232
-recovered Augustus_model.g41446.t1, internal, 476, 676
Couldn't classify 476, 676
Sorry, prediction GeneMark_model.108631_t fails validation.
(ACG)	 AG	476-676	GT	GGG
(GGC)	 AG	1092-1155	GC	AAG
(GAC)	 AG	1234-1841	GT	CTG
(GTG)	 AG	2720-2730	GT	AAG
(ACA)	 AG	2818-2939	GT	AGG
(ATG)	 AG	2971-3043	GT	GAG
(GGA)	 AG	3067-3087	GT	ATG
(ATG)	 AG	3118-3121	AG	GAA
add_exon() Sorry, GeneMark_model.108631_t 2971-3043-initial-1 is invalid.
-recovered GeneMark_model.108631_t, initial, 2971, 3043
-recovered GeneMark_model.108631_t, terminal, 3118, 3121
-recovered GeneMark_model.108631_t, internal, 476, 676
-recovered GeneMark_model.108631_t, internal, 1092, 1155
-recovered GeneMark_model.108631_t, internal, 1234, 1841
-recovered GeneMark_model.108631_t, internal, 2720, 2730
-recovered GeneMark_model.108631_t, internal, 2818, 2939
-recovered GeneMark_model.108631_t, internal, 2971, 3043
-recovered GeneMark_model.108631_t, internal, 3067, 3087
Couldn't classify 476, 676
Sorry, prediction GlimmerHMM_glimmerT_62349-T1 fails validation.
(ACG)	 AG	476-676	GT	GGG
(GGC)	 AG	1092-1232	GG	AAG
-recovered GlimmerHMM_glimmerT_62349-T1, terminal, 1092, 1232
-recovered GlimmerHMM_glimmerT_62349-T1, internal, 476, 676
Couldn't classify 476, 678
Couldn't classify 2720, 2939
Sorry, prediction snap_scaffold_936-snap.2-T1 fails validation.
(ACG)	 AG	476-678	GT	GTG
(GGC)	 AG	1092-1126	GT	TGG
(GAC)	 AG	1234-1841	GT	CTG
(GTG)	 AG	2720-2939	GT	AGG
-recovered snap_scaffold_936-snap.2-T1, internal, 476, 678
-recovered snap_scaffold_936-snap.2-T1, internal, 1092, 1126
-recovered snap_scaffold_936-snap.2-T1, internal, 1234, 1841
-recovered snap_scaffold_936-snap.2-T1, internal, 2720, 2939

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3460, rend_intergenic: 984  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 3922
-exon list size: 26


building trellis

3.6    
7.1    
10.7    
14.3    
17.9    
21.4    
25.0    
28.6    
32.1    
35.7    
39.3    
42.9    
46.4    
50.0    
53.6    
57.1    
60.7    
64.3    
67.9    
71.4    
75.0    
78.6    
82.1    
85.7    
89.3    
92.9    
96.4    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 3460, rend_intergenic: 984  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