-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_4/scaffold_4_2950830-3121042

-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_9001-T1
Valid prediction for snap_scaffold_4-snap.662-T1
Valid prediction for GlimmerHMM_glimmerT_8992-T1
Valid prediction for snap_scaffold_4-snap.660-T1
Valid prediction for snap_scaffold_4-snap.686-T1
Valid prediction for GlimmerHMM_glimmerT_9009-T1
Valid prediction for Augustus_model.g5774.t1
Valid prediction for GlimmerHMM_glimmerT_9010-T1
Valid prediction for GlimmerHMM_glimmerT_8999-T1
Valid prediction for GlimmerHMM_glimmerT_9008-T1
Valid prediction for Augustus_model.g5773.t1
Valid prediction for GlimmerHMM_glimmerT_9014-T1
Valid prediction for Augustus_model.g5785.t1
Valid prediction for Augustus_model.g5777.t1
Valid prediction for GlimmerHMM_glimmerT_8991-T1
Valid prediction for snap_scaffold_4-snap.666-T1
Valid prediction for Augustus_model.g5775.t1
Valid prediction for snap_scaffold_4-snap.689-T1
Valid prediction for snap_scaffold_4-snap.681-T1
Valid prediction for GlimmerHMM_glimmerT_9006-T1
Valid prediction for snap_scaffold_4-snap.675-T1
Valid prediction for GlimmerHMM_glimmerT_8997-T1
Valid prediction for snap_scaffold_4-snap.687-T1
Valid prediction for snap_scaffold_4-snap.668-T1
Valid prediction for GlimmerHMM_glimmerT_8998-T1
Valid prediction for snap_scaffold_4-snap.690-T1
Valid prediction for snap_scaffold_4-snap.685-T1
Valid prediction for snap_scaffold_4-snap.665-T1
Valid prediction for snap_scaffold_4-snap.677-T1
Valid prediction for GlimmerHMM_glimmerT_9003-T1
Valid prediction for GlimmerHMM_glimmerT_9005-T1
Valid prediction for Augustus_model.g5779.t1
Valid prediction for Augustus_model.g5776.t1
Valid prediction for snap_scaffold_4-snap.678-T1
Valid prediction for snap_scaffold_4-snap.693-T1
Valid prediction for GlimmerHMM_glimmerT_8993-T1
Valid prediction for Augustus_model.g5782.t1
Valid prediction for GlimmerHMM_glimmerT_8994-T1
Valid prediction for GlimmerHMM_glimmerT_8996-T1
Valid prediction for snap_scaffold_4-snap.692-T1
Valid prediction for snap_scaffold_4-snap.701-T1
Valid prediction for snap_scaffold_4-snap.697-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g5771.t1
Valid prediction for snap_scaffold_4-snap.663-T1
Valid prediction for snap_scaffold_4-snap.676-T1
Valid prediction for Augustus_model.g5778.t1

-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 GlimmerHMM_glimmerT_9017-T1
Valid prediction for snap_scaffold_4-snap.698-T1
Valid prediction for Augustus_model.g5770.t1
Valid prediction for snap_scaffold_4-snap.683-T1
Valid prediction for snap_scaffold_4-snap.682-T1
Valid prediction for snap_scaffold_4-snap.673-T1
Valid prediction for snap_scaffold_4-snap.679-T1
Valid prediction for Augustus_model.g5786.t1
Valid prediction for GlimmerHMM_glimmerT_9012-T1
Valid prediction for snap_scaffold_4-snap.695-T1
Valid prediction for GlimmerHMM_glimmerT_9007-T1
Valid prediction for snap_scaffold_4-snap.688-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g5781.t1
Valid prediction for snap_scaffold_4-snap.659-T1
Valid prediction for snap_scaffold_4-snap.670-T1
Valid prediction for GlimmerHMM_glimmerT_9000-T1
Valid prediction for GlimmerHMM_glimmerT_9004-T1
Valid prediction for snap_scaffold_4-snap.671-T1
Valid prediction for GlimmerHMM_glimmerT_9011-T1
Valid prediction for snap_scaffold_4-snap.664-T1
Valid prediction for snap_scaffold_4-snap.699-T1
Valid prediction for Augustus_model.g5784.t1
Valid prediction for GlimmerHMM_glimmerT_8995-T1
Valid prediction for snap_scaffold_4-snap.658-T1
Valid prediction for GlimmerHMM_glimmerT_9016-T1
Valid prediction for snap_scaffold_4-snap.691-T1
Valid prediction for snap_scaffold_4-snap.674-T1
Valid prediction for Augustus_model.g5783.t1
Valid prediction for snap_scaffold_4-snap.680-T1
Valid prediction for snap_scaffold_4-snap.684-T1
Valid prediction for snap_scaffold_4-snap.694-T1
Valid prediction for GlimmerHMM_glimmerT_9015-T1
Valid prediction for snap_scaffold_4-snap.661-T1
Valid prediction for snap_scaffold_4-snap.669-T1
Valid prediction for snap_scaffold_4-snap.700-T1
Valid prediction for Augustus_model.g5772.t1
Valid prediction for GlimmerHMM_glimmerT_9013-T1
Valid prediction for GlimmerHMM_glimmerT_8990-T1
Valid prediction for snap_scaffold_4-snap.672-T1
Valid prediction for Augustus_model.g5780.t1
Valid prediction for snap_scaffold_4-snap.667-T1
Valid prediction for GlimmerHMM_glimmerT_9002-T1
Valid prediction for snap_scaffold_4-snap.696-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10887, rend_intergenic: 4743  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12543, rend_intergenic: 11968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18219, rend_intergenic: 13200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19373, rend_intergenic: 18262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27682, rend_intergenic: 21532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37577, rend_intergenic: 29957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40589, rend_intergenic: 39817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49627, rend_intergenic: 41080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63045, rend_intergenic: 58865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79532, rend_intergenic: 73961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116918, rend_intergenic: 114098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134615, rend_intergenic: 133107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142173, rend_intergenic: 135475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147575, rend_intergenic: 142235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156255, rend_intergenic: 153802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163033, rend_intergenic: 156260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168642, rend_intergenic: 163144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 170213
-exon list size: 302


building trellis

0.3    
0.7    
1.0    
1.3    
1.6    
2.0    
2.3    
2.6    
3.0    
3.3    
3.6    
3.9    
4.3    
4.6    
4.9    
5.3    
5.6    
5.9    
6.2    
6.6    
6.9    
7.2    
7.6    
7.9    
8.2    
8.6    
8.9    
9.2    
9.5    
9.9    
10.2    
10.5    
10.9    
11.2    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.8    
14.1    
14.5    
14.8    
15.1    
15.5    
15.8    
16.1    
16.4    
16.8    
17.1    
17.4    
17.8    
18.1    
18.4    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.4    
23.7    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.3    
26.6    
27.0    
27.3    
27.6    
28.0    
28.3    
28.6    
28.9    
29.3    
29.6    
29.9    
30.3    
30.6    
30.9    
31.2    
31.6    
31.9    
32.2    
32.6    
32.9    
33.2    
33.6    
33.9    
34.2    
34.5    
34.9    
35.2    
35.5    
35.9    
36.2    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.4    
41.8    
42.1    
42.4    
42.8    
43.1    
43.4    
43.8    
44.1    
44.4    
44.7    
45.1    
45.4    
45.7    
46.1    
46.4    
46.7    
47.0    
47.4    
47.7    
48.0    
48.4    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.6    
52.0    
52.3    
52.6    
53.0    
53.3    
53.6    
53.9    
54.3    
54.6    
54.9    
55.3    
55.6    
55.9    
56.2    
56.6    
56.9    
57.2    
57.6    
57.9    
58.2    
58.6    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.8    
64.1    
64.5    
64.8    
65.1    
65.5    
65.8    
66.1    
66.4    
66.8    
67.1    
67.4    
67.8    
68.1    
68.4    
68.8    
69.1    
69.4    
69.7    
70.1    
70.4    
70.7    
71.1    
71.4    
71.7    
72.0    
72.4    
72.7    
73.0    
73.4    
73.7    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.3    
76.6    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.6    
81.9    
82.2    
82.6    
82.9    
83.2    
83.6    
83.9    
84.2    
84.5    
84.9    
85.2    
85.5    
85.9    
86.2    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.8    
89.1    
89.5    
89.8    
90.1    
90.5    
90.8    
91.1    
91.4    
91.8    
92.1    
92.4    
92.8    
93.1    
93.4    
93.8    
94.1    
94.4    
94.7    
95.1    
95.4    
95.7    
96.1    
96.4    
96.7    
97.0    
97.4    
97.7    
98.0    
98.4    
98.7    
99.0    
99.3    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 10887, rend_intergenic: 4743  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12543, rend_intergenic: 11968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18219, rend_intergenic: 13200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19373, rend_intergenic: 18262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27682, rend_intergenic: 21532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37577, rend_intergenic: 29957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40589, rend_intergenic: 39817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49627, rend_intergenic: 41080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63045, rend_intergenic: 58865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79532, rend_intergenic: 73961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116918, rend_intergenic: 114098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134615, rend_intergenic: 133107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142173, rend_intergenic: 135475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147575, rend_intergenic: 142235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156255, rend_intergenic: 153802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163033, rend_intergenic: 156260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168642, rend_intergenic: 163144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 156620 - 170213
-exon list size: 13


building trellis

6.7    
13.3    
20.0    
26.7    
33.3    
40.0    
46.7    
53.3    
60.0    
66.7    
73.3    
80.0    
86.7    
93.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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