-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_2342765-2548003

-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 Augustus_model.g5734.t1
Valid prediction for Augustus_model.g5737.t1
Valid prediction for snap_scaffold_4-snap.541-T1
Valid prediction for snap_scaffold_4-snap.542-T1
Valid prediction for GlimmerHMM_glimmerT_8932-T1
Valid prediction for GlimmerHMM_glimmerT_8917-T1
Valid prediction for GlimmerHMM_glimmerT_8927-T1
Valid prediction for Augustus_model.g5733.t1
Valid prediction for GlimmerHMM_glimmerT_8918-T1
Valid prediction for GlimmerHMM_glimmerT_8925-T1
Valid prediction for GlimmerHMM_glimmerT_8923-T1
Valid prediction for snap_scaffold_4-snap.539-T1
Valid prediction for snap_scaffold_4-snap.546-T1
Valid prediction for GlimmerHMM_glimmerT_8938-T1
Valid prediction for snap_scaffold_4-snap.535-T1
Valid prediction for GlimmerHMM_glimmerT_8941-T1
Valid prediction for snap_scaffold_4-snap.554-T1
Valid prediction for Augustus_model.g5731.t1
Valid prediction for snap_scaffold_4-snap.552-T1
Valid prediction for snap_scaffold_4-snap.533-T1
Valid prediction for snap_scaffold_4-snap.548-T1
Valid prediction for snap_scaffold_4-snap.568-T1
Valid prediction for GlimmerHMM_glimmerT_8934-T1
Valid prediction for snap_scaffold_4-snap.558-T1
Valid prediction for GlimmerHMM_glimmerT_8939-T1
Valid prediction for GlimmerHMM_glimmerT_8929-T1
Valid prediction for snap_scaffold_4-snap.564-T1
Valid prediction for Augustus_model.g5735.t1
Valid prediction for Augustus_model.g5736.t1
Valid prediction for GlimmerHMM_glimmerT_8940-T1
Valid prediction for snap_scaffold_4-snap.544-T1
Valid prediction for GlimmerHMM_glimmerT_8921-T1
Valid prediction for snap_scaffold_4-snap.551-T1
Valid prediction for snap_scaffold_4-snap.561-T1
Valid prediction for snap_scaffold_4-snap.537-T1
Valid prediction for snap_scaffold_4-snap.553-T1
Valid prediction for GlimmerHMM_glimmerT_8933-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 Augustus_model.g5730.t1
Valid prediction for snap_scaffold_4-snap.562-T1
Valid prediction for snap_scaffold_4-snap.538-T1
Valid prediction for GlimmerHMM_glimmerT_8914-T1
Valid prediction for GlimmerHMM_glimmerT_8915-T1
Valid prediction for GlimmerHMM_glimmerT_8922-T1
Valid prediction for snap_scaffold_4-snap.545-T1
Valid prediction for snap_scaffold_4-snap.536-T1
Valid prediction for GlimmerHMM_glimmerT_8935-T1
Valid prediction for Augustus_model.g5732.t1
Valid prediction for snap_scaffold_4-snap.532-T1
Valid prediction for GlimmerHMM_glimmerT_8920-T1
Valid prediction for GlimmerHMM_glimmerT_8916-T1
Valid prediction for snap_scaffold_4-snap.549-T1
Valid prediction for GlimmerHMM_glimmerT_8931-T1
Valid prediction for snap_scaffold_4-snap.565-T1
Valid prediction for snap_scaffold_4-snap.543-T1
Valid prediction for snap_scaffold_4-snap.566-T1
Valid prediction for snap_scaffold_4-snap.560-T1
Valid prediction for snap_scaffold_4-snap.534-T1
Valid prediction for snap_scaffold_4-snap.547-T1
Valid prediction for GlimmerHMM_glimmerT_8924-T1
Valid prediction for GlimmerHMM_glimmerT_8919-T1
Valid prediction for snap_scaffold_4-snap.569-T1
Valid prediction for snap_scaffold_4-snap.550-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_4-snap.563-T1
Valid prediction for snap_scaffold_4-snap.555-T1
Valid prediction for GlimmerHMM_glimmerT_8928-T1
Valid prediction for GlimmerHMM_glimmerT_8936-T1
Valid prediction for GlimmerHMM_glimmerT_8926-T1
Valid prediction for snap_scaffold_4-snap.567-T1
Valid prediction for snap_scaffold_4-snap.531-T1
Valid prediction for snap_scaffold_4-snap.540-T1
Valid prediction for snap_scaffold_4-snap.556-T1
Valid prediction for GlimmerHMM_glimmerT_8937-T1
Valid prediction for GlimmerHMM_glimmerT_8930-T1
Valid prediction for snap_scaffold_4-snap.559-T1
Valid prediction for snap_scaffold_4-snap.557-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14159, rend_intergenic: 6807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17894, rend_intergenic: 17185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19346, rend_intergenic: 18709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49313, rend_intergenic: 46801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61137, rend_intergenic: 49800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68860, rend_intergenic: 64973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78573, rend_intergenic: 71570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80494, rend_intergenic: 79807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86679, rend_intergenic: 81447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135893, rend_intergenic: 87391  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147961, rend_intergenic: 139566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152356, rend_intergenic: 148521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163099, rend_intergenic: 153965  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173982, rend_intergenic: 165129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188965, rend_intergenic: 184002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195060, rend_intergenic: 193591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 205239
-exon list size: 311


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.2    
2.6    
2.9    
3.2    
3.5    
3.8    
4.2    
4.5    
4.8    
5.1    
5.4    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.7    
8.0    
8.3    
8.6    
8.9    
9.3    
9.6    
9.9    
10.2    
10.5    
10.9    
11.2    
11.5    
11.8    
12.1    
12.5    
12.8    
13.1    
13.4    
13.7    
14.1    
14.4    
14.7    
15.0    
15.3    
15.7    
16.0    
16.3    
16.6    
16.9    
17.3    
17.6    
17.9    
18.2    
18.5    
18.8    
19.2    
19.5    
19.8    
20.1    
20.4    
20.8    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.3    
23.6    
24.0    
24.3    
24.6    
24.9    
25.2    
25.6    
25.9    
26.2    
26.5    
26.8    
27.2    
27.5    
27.8    
28.1    
28.4    
28.8    
29.1    
29.4    
29.7    
30.0    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.5    
35.8    
36.1    
36.4    
36.7    
37.1    
37.4    
37.7    
38.0    
38.3    
38.7    
39.0    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.2    
41.5    
41.9    
42.2    
42.5    
42.8    
43.1    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.4    
45.7    
46.0    
46.3    
46.6    
47.0    
47.3    
47.6    
47.9    
48.2    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.8    
52.1    
52.4    
52.7    
53.0    
53.4    
53.7    
54.0    
54.3    
54.6    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.9    
57.2    
57.5    
57.8    
58.1    
58.5    
58.8    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.0    
61.3    
61.7    
62.0    
62.3    
62.6    
62.9    
63.3    
63.6    
63.9    
64.2    
64.5    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
70.0    
70.3    
70.6    
70.9    
71.2    
71.6    
71.9    
72.2    
72.5    
72.8    
73.2    
73.5    
73.8    
74.1    
74.4    
74.8    
75.1    
75.4    
75.7    
76.0    
76.4    
76.7    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.2    
79.6    
79.9    
80.2    
80.5    
80.8    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.1    
83.4    
83.7    
84.0    
84.3    
84.7    
85.0    
85.3    
85.6    
85.9    
86.3    
86.6    
86.9    
87.2    
87.5    
87.9    
88.2    
88.5    
88.8    
89.1    
89.5    
89.8    
90.1    
90.4    
90.7    
91.1    
91.4    
91.7    
92.0    
92.3    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.6    
94.9    
95.2    
95.5    
95.8    
96.2    
96.5    
96.8    
97.1    
97.4    
97.8    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 14159, rend_intergenic: 6807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17894, rend_intergenic: 17185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19346, rend_intergenic: 18709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49313, rend_intergenic: 46801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61137, rend_intergenic: 49800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68860, rend_intergenic: 64973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78573, rend_intergenic: 71570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80494, rend_intergenic: 79807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86679, rend_intergenic: 81447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135893, rend_intergenic: 87391  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147961, rend_intergenic: 139566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152356, rend_intergenic: 148521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163099, rend_intergenic: 153965  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173982, rend_intergenic: 165129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188965, rend_intergenic: 184002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195060, rend_intergenic: 193591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support