-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_18/scaffold_18_2829432-3028458

-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 snap_scaffold_18-snap.589-T1
Valid prediction for GeneMark_model.74193_t
Valid prediction for snap_scaffold_18-snap.599-T1
Valid prediction for GeneMark_model.74189_t
Valid prediction for GlimmerHMM_glimmerT_42942-T1
Valid prediction for snap_scaffold_18-snap.588-T1
Couldn't classify 51137, 51259
Sorry, prediction pasa_asmbl_20459.p1 fails validation.
(AGC)	 GC	51137-51259	GT	AGG
(GAG)	 AG	52363-52467	GT	GAG
(GAC)	 AG	55278-55364	AA	AGA
-recovered pasa_asmbl_20459.p1, terminal, 55278, 55364
-recovered pasa_asmbl_20459.p1, internal, 52363, 52467
Valid prediction for snap_scaffold_18-snap.601-T1
Valid prediction for GlimmerHMM_glimmerT_42955-T1
Valid prediction for Augustus_model.g28726.t1
Valid prediction for Augustus_model.g28725.t1
Valid prediction for snap_scaffold_18-snap.597-T1
Valid prediction for GeneMark_model.74179_t
Valid prediction for GlimmerHMM_glimmerT_42937-T1
Valid prediction for GeneMark_model.74197_t
Valid prediction for GlimmerHMM_glimmerT_42950-T1
Valid prediction for GeneMark_model.74177_t
Valid prediction for snap_scaffold_18-snap.604-T1
Valid prediction for CodingQuarry_transcript_23653-T1
Valid prediction for Augustus_model.g28724.t1
Valid prediction for snap_scaffold_18-snap.576-T1
Valid prediction for GlimmerHMM_glimmerT_42935-T1
Valid prediction for GeneMark_model.74188_t
Valid prediction for GeneMark_model.74186_t
Valid prediction for snap_scaffold_18-snap.580-T1
Valid prediction for snap_scaffold_18-snap.578-T1
Valid prediction for GlimmerHMM_glimmerT_42940-T1
Valid prediction for Augustus_model.g28730.t1
Valid prediction for GeneMark_model.74194_t
Valid prediction for Augustus_model.g28732.t1
Valid prediction for GeneMark_model.74205_t
Valid prediction for GeneMark_model.74178_t
Valid prediction for snap_scaffold_18-snap.574-T1
Valid prediction for GeneMark_model.74199_t
Valid prediction for HiQ_model.g28734.t1
Valid prediction for snap_scaffold_18-snap.582-T1
Valid prediction for snap_scaffold_18-snap.591-T1
Valid prediction for Augustus_model.g28722.t1
Valid prediction for snap_scaffold_18-snap.584-T1
Valid prediction for snap_scaffold_18-snap.587-T1
Valid prediction for snap_scaffold_18-snap.600-T1
Valid prediction for GeneMark_model.74203_t
Valid prediction for GeneMark_model.74175_t
Valid prediction for GeneMark_model.74201_t
Valid prediction for snap_scaffold_18-snap.585-T1
Valid prediction for Augustus_model.g28729.t1
Valid prediction for Augustus_model.g28733.t1
Valid prediction for snap_scaffold_18-snap.581-T1
Valid prediction for GlimmerHMM_glimmerT_42957-T1
Valid prediction for Augustus_model.g28727.t1
Valid prediction for GeneMark_model.74195_t
Couldn't classify 13878, 14366
Sorry, prediction pasa_asmbl_20458.p1 fails validation.
(ATG)	 TC	13878-14366	AA	AGA
Valid prediction for GeneMark_model.74182_t
Valid prediction for snap_scaffold_18-snap.598-T1
Valid prediction for snap_scaffold_18-snap.605-T1
Valid prediction for snap_scaffold_18-snap.594-T1
Valid prediction for GeneMark_model.74171_t
Valid prediction for GlimmerHMM_glimmerT_42945-T1
Valid prediction for Augustus_model.g28728.t1
Valid prediction for GeneMark_model.74207_t

-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 snap_scaffold_18-snap.602-T1
Valid prediction for GeneMark_model.74170_t
Valid prediction for GlimmerHMM_glimmerT_42936-T1
Valid prediction for snap_scaffold_18-snap.593-T1
Valid prediction for GlimmerHMM_glimmerT_42938-T1
Valid prediction for GeneMark_model.74183_t
Valid prediction for snap_scaffold_18-snap.590-T1
Valid prediction for GlimmerHMM_glimmerT_42944-T1
Valid prediction for GlimmerHMM_glimmerT_42954-T1
Valid prediction for GlimmerHMM_glimmerT_42941-T1
Valid prediction for GeneMark_model.74172_t
Valid prediction for GeneMark_model.74185_t
Valid prediction for GlimmerHMM_glimmerT_42948-T1
Valid prediction for snap_scaffold_18-snap.596-T1
Valid prediction for snap_scaffold_18-snap.586-T1
Valid prediction for GeneMark_model.74196_t
Valid prediction for GeneMark_model.74174_t
Valid prediction for GeneMark_model.74173_t
Valid prediction for snap_scaffold_18-snap.577-T1
Valid prediction for GeneMark_model.74184_t
Valid prediction for GlimmerHMM_glimmerT_42949-T1
Valid prediction for snap_scaffold_18-snap.592-T1
Valid prediction for GlimmerHMM_glimmerT_42946-T1
Valid prediction for GeneMark_model.74198_t
Valid prediction for Augustus_model.g28721.t1
Valid prediction for GeneMark_model.74192_t
Valid prediction for GlimmerHMM_glimmerT_42953-T1
Valid prediction for GeneMark_model.74206_t
Valid prediction for GeneMark_model.74204_t
Valid prediction for GeneMark_model.74169_t
Valid prediction for Augustus_model.g28731.t1
Valid prediction for GlimmerHMM_glimmerT_42947-T1
Valid prediction for snap_scaffold_18-snap.579-T1
Valid prediction for GlimmerHMM_glimmerT_42939-T1
Valid prediction for GlimmerHMM_glimmerT_42951-T1
Valid prediction for GeneMark_model.74187_t
Valid prediction for GeneMark_model.74190_t
Valid prediction for GlimmerHMM_glimmerT_42956-T1
Valid prediction for snap_scaffold_18-snap.603-T1
Valid prediction for GlimmerHMM_glimmerT_42943-T1
Valid prediction for GeneMark_model.74191_t
Valid prediction for snap_scaffold_18-snap.595-T1
Valid prediction for GlimmerHMM_glimmerT_42952-T1
Valid prediction for GeneMark_model.74176_t
Valid prediction for GeneMark_model.74202_t
Valid prediction for GeneMark_model.74181_t
Valid prediction for GeneMark_model.74200_t
Valid prediction for snap_scaffold_18-snap.583-T1
Valid prediction for GeneMark_model.74180_t
Valid prediction for snap_scaffold_18-snap.575-T1
Valid prediction for Augustus_model.g28723.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11323, rend_intergenic: 9527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73264, rend_intergenic: 68759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140063, rend_intergenic: 130824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147864, rend_intergenic: 142115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179003, rend_intergenic: 173581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199027
-exon list size: 438


building trellis

0.2    
0.5    
0.7    
0.9    
1.1    
1.4    
1.6    
1.8    
2.0    
2.3    
2.5    
2.7    
3.0    
3.2    
3.4    
3.6    
3.9    
4.1    
4.3    
4.5    
4.8    
5.0    
5.2    
5.5    
5.7    
5.9    
6.1    
6.4    
6.6    
6.8    
7.0    
7.3    
7.5    
7.7    
8.0    
8.2    
8.4    
8.6    
8.9    
9.1    
9.3    
9.5    
9.8    
10.0    
10.2    
10.5    
10.7    
10.9    
11.1    
11.4    
11.6    
11.8    
12.0    
12.3    
12.5    
12.7    
13.0    
13.2    
13.4    
13.6    
13.9    
14.1    
14.3    
14.5    
14.8    
15.0    
15.2    
15.5    
15.7    
15.9    
16.1    
16.4    
16.6    
16.8    
17.0    
17.3    
17.5    
17.7    
18.0    
18.2    
18.4    
18.6    
18.9    
19.1    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
20.9    
21.1    
21.4    
21.6    
21.8    
22.0    
22.3    
22.5    
22.7    
23.0    
23.2    
23.4    
23.6    
23.9    
24.1    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
25.9    
26.1    
26.4    
26.6    
26.8    
27.0    
27.3    
27.5    
27.7    
28.0    
28.2    
28.4    
28.6    
28.9    
29.1    
29.3    
29.5    
29.8    
30.0    
30.2    
30.5    
30.7    
30.9    
31.1    
31.4    
31.6    
31.8    
32.0    
32.3    
32.5    
32.7    
33.0    
33.2    
33.4    
33.6    
33.9    
34.1    
34.3    
34.5    
34.8    
35.0    
35.2    
35.5    
35.7    
35.9    
36.1    
36.4    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
38.0    
38.2    
38.4    
38.6    
38.9    
39.1    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
40.9    
41.1    
41.4    
41.6    
41.8    
42.0    
42.3    
42.5    
42.7    
43.0    
43.2    
43.4    
43.6    
43.9    
44.1    
44.3    
44.5    
44.8    
45.0    
45.2    
45.5    
45.7    
45.9    
46.1    
46.4    
46.6    
46.8    
47.0    
47.3    
47.5    
47.7    
48.0    
48.2    
48.4    
48.6    
48.9    
49.1    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
50.9    
51.1    
51.4    
51.6    
51.8    
52.0    
52.3    
52.5    
52.7    
53.0    
53.2    
53.4    
53.6    
53.9    
54.1    
54.3    
54.5    
54.8    
55.0    
55.2    
55.5    
55.7    
55.9    
56.1    
56.4    
56.6    
56.8    
57.0    
57.3    
57.5    
57.7    
58.0    
58.2    
58.4    
58.6    
58.9    
59.1    
59.3    
59.5    
59.8    
60.0    
60.2    
60.5    
60.7    
60.9    
61.1    
61.4    
61.6    
61.8    
62.0    
62.3    
62.5    
62.7    
63.0    
63.2    
63.4    
63.6    
63.9    
64.1    
64.3    
64.5    
64.8    
65.0    
65.2    
65.5    
65.7    
65.9    
66.1    
66.4    
66.6    
66.8    
67.0    
67.3    
67.5    
67.7    
68.0    
68.2    
68.4    
68.6    
68.9    
69.1    
69.3    
69.5    
69.8    
70.0    
70.2    
70.5    
70.7    
70.9    
71.1    
71.4    
71.6    
71.8    
72.0    
72.3    
72.5    
72.7    
73.0    
73.2    
73.4    
73.6    
73.9    
74.1    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
75.9    
76.1    
76.4    
76.6    
76.8    
77.0    
77.3    
77.5    
77.7    
78.0    
78.2    
78.4    
78.6    
78.9    
79.1    
79.3    
79.5    
79.8    
80.0    
80.2    
80.5    
80.7    
80.9    
81.1    
81.4    
81.6    
81.8    
82.0    
82.3    
82.5    
82.7    
83.0    
83.2    
83.4    
83.6    
83.9    
84.1    
84.3    
84.5    
84.8    
85.0    
85.2    
85.5    
85.7    
85.9    
86.1    
86.4    
86.6    
86.8    
87.0    
87.3    
87.5    
87.7    
88.0    
88.2    
88.4    
88.6    
88.9    
89.1    
89.3    
89.5    
89.8    
90.0    
90.2    
90.5    
90.7    
90.9    
91.1    
91.4    
91.6    
91.8    
92.0    
92.3    
92.5    
92.7    
93.0    
93.2    
93.4    
93.6    
93.9    
94.1    
94.3    
94.5    
94.8    
95.0    
95.2    
95.5    
95.7    
95.9    
96.1    
96.4    
96.6    
96.8    
97.0    
97.3    
97.5    
97.7    
98.0    
98.2    
98.4    
98.6    
98.9    
99.1    
99.3    
99.5    
99.8    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 11323, rend_intergenic: 9527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73264, rend_intergenic: 68759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140063, rend_intergenic: 130824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147864, rend_intergenic: 142115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179003, rend_intergenic: 173581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support