-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1340

-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_62593-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62593-T1 1750-2098-terminal-1 is invalid.
Couldn't classify 36, 244
Couldn't classify 2465, 2589
Sorry, prediction snap_scaffold_1340-snap.1-T1 fails validation.
(GTG)	 AG	36-244	GT	AGG
(CGC)	 AG	1750-1937	GT	GGG
(AGG)	 AG	1945-2136	GT	AAG
(GTG)	 AG	2465-2589	GT	CTG
-recovered snap_scaffold_1340-snap.1-T1, internal, 36, 244
-recovered snap_scaffold_1340-snap.1-T1, internal, 1750, 1937
-recovered snap_scaffold_1340-snap.1-T1, internal, 1945, 2136
-recovered snap_scaffold_1340-snap.1-T1, internal, 2465, 2589
Sorry, intron length (6) is less than minimum required (10)
Couldn't classify 2465, 2589
Sorry, prediction GlimmerHMM_glimmerT_62594-T1 fails validation.
(ATG)	 CC	2115-2136	GT	AAG
(GTG)	 AG	2465-2589	GT	CTG
-recovered GlimmerHMM_glimmerT_62594-T1, initial, 2115, 2136
-recovered GlimmerHMM_glimmerT_62594-T1, internal, 2465, 2589
Couldn't classify 1751, 1937
Couldn't classify 2465, 2586
Sorry, prediction pasa_asmbl_11691.p2 fails validation.
(GCT)	 GC	1751-1937	GT	GGG
(GTG)	 AG	2465-2586	GC	ATG
-recovered pasa_asmbl_11691.p2, internal, 2465, 2586
Couldn't classify 42, 244
Couldn't classify 2465, 2617
Sorry, prediction Augustus_model.g41628.t1 fails validation.
(GGA)	 AG	42-244	GT	AGG
(CGC)	 AG	1750-1937	GT	GGG
(GTG)	 AG	2465-2617		AG
-recovered Augustus_model.g41628.t1, internal, 42, 244
-recovered Augustus_model.g41628.t1, internal, 1750, 1937

-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 GeneMark_model.109224_t
Couldn't classify 31, 180
Sorry, prediction GeneMark_model.109225_t fails validation.
(CAT)	 AG	31-180	GT	GGG
(AGA)	 AG	212-341	CC	AAC
-recovered GeneMark_model.109225_t, terminal, 212, 341
-recovered GeneMark_model.109225_t, internal, 31, 180
Couldn't classify 2388, 2550
Sorry, prediction snap_scaffold_1340-snap.2-T1 fails validation.
(ATG)	 GG	854-1042	GT	GGG
(GTG)	 AG	2388-2550	GT	CTG
-recovered snap_scaffold_1340-snap.2-T1, initial, 854, 1042
-recovered snap_scaffold_1340-snap.2-T1, internal, 2388, 2550

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2589, rend_intergenic: 68  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 2617
-exon list size: 25


building trellis

3.7    
7.4    
11.1    
14.8    
18.5    
22.2    
25.9    
29.6    
33.3    
37.0    
40.7    
44.4    
48.1    
51.9    
55.6    
59.3    
63.0    
66.7    
70.4    
74.1    
77.8    
81.5    
85.2    
88.9    
92.6    
96.3    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2589, rend_intergenic: 68  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