-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_184

-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.106862_t
Valid prediction for GeneMark_model.106859_t
Couldn't classify 460, 516
Sorry, prediction GeneMark_model.106857_t fails validation.
(GTG)	 AG	460-516	GT	GCG
(GTG)	 AG	538-570	GT	TGG
(GGT)	 AG	595-621	GT	GGG
(GTC)	 AG	660-704	GT	GTG
(GAG)	 AG	1023-1037	GT	GGG
(GGA)	 AG	1063-1093	AG	GAA
-recovered GeneMark_model.106857_t, terminal, 1063, 1093
-recovered GeneMark_model.106857_t, internal, 460, 516
-recovered GeneMark_model.106857_t, internal, 538, 570
-recovered GeneMark_model.106857_t, internal, 595, 621
-recovered GeneMark_model.106857_t, internal, 660, 704
-recovered GeneMark_model.106857_t, internal, 1023, 1037
Couldn't classify 2624, 2762
Couldn't classify 6741, 6774
Sorry, prediction snap_scaffold_184-snap.2-T1 fails validation.
(GCA)	 AG	2624-2762	GT	ATG
(AAG)	 AG	5274-5361	GT	ACG
(AAG)	 AG	6670-6676	GT	AGG
(GCT)	 AG	6741-6774	GT	AGG
-recovered snap_scaffold_184-snap.2-T1, internal, 2624, 2762
-recovered snap_scaffold_184-snap.2-T1, internal, 5274, 5361
-recovered snap_scaffold_184-snap.2-T1, internal, 6670, 6676
-recovered snap_scaffold_184-snap.2-T1, internal, 6741, 6774

-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.106860_t
Couldn't classify 8772, 8976
Sorry, prediction snap_scaffold_184-snap.1-T1 fails validation.
(ATG)	 AG	7142-7145	GT	GGG
(CTC)	 AG	8650-8742	GT	GGG
(GAG)	 AG	8772-8976	GT	ATG
-recovered snap_scaffold_184-snap.1-T1, initial, 7142, 7145
-recovered snap_scaffold_184-snap.1-T1, internal, 7142, 7145
-recovered snap_scaffold_184-snap.1-T1, internal, 8650, 8742
-recovered snap_scaffold_184-snap.1-T1, internal, 8772, 8976
Valid prediction for GeneMark_model.106858_t
Couldn't classify 84, 257
Sorry, prediction snap_scaffold_184-snap.3-T1 fails validation.
(AGA)	 AG	84-257	GT	GGG
(GCT)	 AG	5704-5836	TG	AGT
-recovered snap_scaffold_184-snap.3-T1, terminal, 5704, 5836
-recovered snap_scaffold_184-snap.3-T1, internal, 84, 257
Valid prediction for GeneMark_model.106861_t
Valid prediction for GlimmerHMM_glimmerT_61466-T1
Couldn't classify 99, 239
Sorry, prediction GeneMark_model.106863_t fails validation.
(AGA)	 AG	99-239	GT	AAG
(GAG)	 AG	270-338	GT	GCG
(AGA)	 AG	2145-2217	TC	AAT
add_exon() Sorry, GeneMark_model.106863_t 99-239-terminal-1 is invalid.
-recovered GeneMark_model.106863_t, terminal, 99, 239
-recovered GeneMark_model.106863_t, terminal, 2145, 2217
-recovered GeneMark_model.106863_t, internal, 99, 239
-recovered GeneMark_model.106863_t, internal, 270, 338

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3010, rend_intergenic: 2624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6774, rend_intergenic: 4316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 10151
-exon list size: 65


building trellis

1.5    
3.0    
4.5    
6.0    
7.5    
9.0    
10.4    
11.9    
13.4    
14.9    
16.4    
17.9    
19.4    
20.9    
22.4    
23.9    
25.4    
26.9    
28.4    
29.9    
31.3    
32.8    
34.3    
35.8    
37.3    
38.8    
40.3    
41.8    
43.3    
44.8    
46.3    
47.8    
49.3    
50.7    
52.2    
53.7    
55.2    
56.7    
58.2    
59.7    
61.2    
62.7    
64.2    
65.7    
67.2    
68.7    
70.1    
71.6    
73.1    
74.6    
76.1    
77.6    
79.1    
80.6    
82.1    
83.6    
85.1    
86.6    
88.1    
89.6    
91.0    
92.5    
94.0    
95.5    
97.0    
98.5    
-found 6 predictions from path traversal
Error with prediction: snap lend_intergenic: 3010, rend_intergenic: 2624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6774, rend_intergenic: 4316  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