-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_232

-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 7147, 7207
Sorry, prediction GeneMark_model.107012_t fails validation.
(ATG)	 GT	5096-5105	GT	CCG
(ATG)	 AG	5142-5163	GT	GAG
(TGT)	 AG	5195-5215	GT	GAG
(GAG)	 AG	5246-5359	GT	GTG
(CGA)	 AG	5383-5424	GT	GAG
(AGG)	 AG	5452-5511	GT	GAG
(GAG)	 AG	5534-5623	GC	GAG
(GAC)	 AG	5644-5664	GT	AGG
(GGA)	 AG	6295-6300	GT	TTG
(GGA)	 AG	6784-6792	GT	GGG
(GAA)	 AG	6820-6978	GT	AAG
(GGG)	 AG	7005-7013	GT	GGG
(AGA)	 AG	7050-7058	GT	AGG
(AGA)	 AG	7092-7124	GT	GGG
(ACA)	 AG	7147-7207	GT	AGG
-recovered GeneMark_model.107012_t, initial, 5096, 5105
add_exon() Sorry, GeneMark_model.107012_t 5142-5163-initial-1 is invalid.
-recovered GeneMark_model.107012_t, initial, 5142, 5163
-recovered GeneMark_model.107012_t, internal, 5142, 5163
-recovered GeneMark_model.107012_t, internal, 5195, 5215
-recovered GeneMark_model.107012_t, internal, 5246, 5359
-recovered GeneMark_model.107012_t, internal, 5383, 5424
-recovered GeneMark_model.107012_t, internal, 5452, 5511
-recovered GeneMark_model.107012_t, internal, 5534, 5623
-recovered GeneMark_model.107012_t, internal, 5644, 5664
-recovered GeneMark_model.107012_t, internal, 6295, 6300
-recovered GeneMark_model.107012_t, internal, 6784, 6792
-recovered GeneMark_model.107012_t, internal, 6820, 6978
-recovered GeneMark_model.107012_t, internal, 7005, 7013
-recovered GeneMark_model.107012_t, internal, 7050, 7058
-recovered GeneMark_model.107012_t, internal, 7092, 7124
-recovered GeneMark_model.107012_t, internal, 7147, 7207
Couldn't classify 7627, 7746
Sorry, prediction snap_scaffold_232-snap.3-T1 fails validation.
(ATG)	 AG	6830-7013	GT	GGG
(CAG)	 AG	7627-7746	GT	CGG
-recovered snap_scaffold_232-snap.3-T1, initial, 6830, 7013
-recovered snap_scaffold_232-snap.3-T1, internal, 6830, 7013
-recovered snap_scaffold_232-snap.3-T1, internal, 7627, 7746
Couldn't classify 102, 217
Sorry, prediction snap_scaffold_232-snap.1-T1 fails validation.
(TCA)	 AG	102-217	GT	AGG
(CGG)	 AG	2952-3036	GT	AGG
(CTC)	 AG	4722-4770	GT	TGG
(GGT)	 AG	6499-6525	AG	AGA
-recovered snap_scaffold_232-snap.1-T1, terminal, 6499, 6525
-recovered snap_scaffold_232-snap.1-T1, internal, 102, 217
-recovered snap_scaffold_232-snap.1-T1, internal, 2952, 3036
-recovered snap_scaffold_232-snap.1-T1, internal, 4722, 4770
Couldn't classify 102, 189
Sorry, prediction GeneMark_model.107010_t fails validation.
(TCA)	 AG	102-189	GT	AGG
(GAC)	 AG	1279-1387	TT	AGT
-recovered GeneMark_model.107010_t, terminal, 1279, 1387
-recovered GeneMark_model.107010_t, internal, 102, 189

-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 767, 895
Couldn't classify 5455, 5550
Sorry, prediction snap_scaffold_232-snap.2-T1 fails validation.
(AGC)	 AG	767-895	GT	AGG
(TAA)	 AG	4562-5260	GT	CGG
(ACG)	 AG	5364-5413	GT	TCG
(AAT)	 AG	5455-5550	GT	TGG
add_exon() Sorry, snap_scaffold_232-snap.2-T1 767-895-terminal-1 is invalid.
-recovered snap_scaffold_232-snap.2-T1, terminal, 767, 895
-recovered snap_scaffold_232-snap.2-T1, internal, 767, 895
-recovered snap_scaffold_232-snap.2-T1, internal, 4562, 5260
-recovered snap_scaffold_232-snap.2-T1, internal, 5364, 5413
-recovered snap_scaffold_232-snap.2-T1, internal, 5455, 5550
Valid prediction for GeneMark_model.107011_t
Couldn't classify 767, 849
Sorry, prediction GlimmerHMM_glimmerT_61545-T1 fails validation.
(AGC)	 AG	767-849	GT	TGG
(ACG)	 AG	9042-9089	CC	GAC
-recovered GlimmerHMM_glimmerT_61545-T1, terminal, 9042, 9089
-recovered GlimmerHMM_glimmerT_61545-T1, internal, 767, 849

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6525, rend_intergenic: 3739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 8522, rend_intergenic: 6830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 9288
-exon list size: 72


building trellis

1.4    
2.7    
4.1    
5.4    
6.8    
8.1    
9.5    
10.8    
12.2    
13.5    
14.9    
16.2    
17.6    
18.9    
20.3    
21.6    
23.0    
24.3    
25.7    
27.0    
28.4    
29.7    
31.1    
32.4    
33.8    
35.1    
36.5    
37.8    
39.2    
40.5    
41.9    
43.2    
44.6    
45.9    
47.3    
48.6    
50.0    
51.4    
52.7    
54.1    
55.4    
56.8    
58.1    
59.5    
60.8    
62.2    
63.5    
64.9    
66.2    
67.6    
68.9    
70.3    
71.6    
73.0    
74.3    
75.7    
77.0    
78.4    
79.7    
81.1    
82.4    
83.8    
85.1    
86.5    
87.8    
89.2    
90.5    
91.9    
93.2    
94.6    
95.9    
97.3    
98.6    
-found 3 predictions from path traversal
Error with prediction: snap lend_intergenic: 6525, rend_intergenic: 3739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 8522, rend_intergenic: 6830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support