-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_3/scaffold_3_9259047-9458926

-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_7044-T1
Valid prediction for snap_scaffold_3-snap.1853-T1
Valid prediction for snap_scaffold_3-snap.1839-T1
Valid prediction for snap_scaffold_3-snap.1835-T1
Valid prediction for Augustus_model.g4596.t1
Valid prediction for snap_scaffold_3-snap.1842-T1
Valid prediction for Augustus_model.g4594.t1
Valid prediction for snap_scaffold_3-snap.1852-T1
Valid prediction for GlimmerHMM_glimmerT_7047-T1
Valid prediction for Augustus_model.g4593.t1
Valid prediction for snap_scaffold_3-snap.1819-T1
Valid prediction for GlimmerHMM_glimmerT_7055-T1
Valid prediction for snap_scaffold_3-snap.1821-T1
Valid prediction for GlimmerHMM_glimmerT_7029-T1
Valid prediction for GlimmerHMM_glimmerT_7049-T1
Valid prediction for snap_scaffold_3-snap.1824-T1
Valid prediction for GlimmerHMM_glimmerT_7035-T1
Valid prediction for GlimmerHMM_glimmerT_7041-T1
Valid prediction for GlimmerHMM_glimmerT_7048-T1
Valid prediction for snap_scaffold_3-snap.1830-T1
Valid prediction for GlimmerHMM_glimmerT_7039-T1
Valid prediction for GlimmerHMM_glimmerT_7045-T1
Valid prediction for snap_scaffold_3-snap.1849-T1
Valid prediction for snap_scaffold_3-snap.1822-T1
Valid prediction for snap_scaffold_3-snap.1837-T1
Valid prediction for snap_scaffold_3-snap.1854-T1
Valid prediction for GlimmerHMM_glimmerT_7051-T1
Valid prediction for GlimmerHMM_glimmerT_7050-T1
Valid prediction for Augustus_model.g4601.t1
Valid prediction for GlimmerHMM_glimmerT_7032-T1
Valid prediction for snap_scaffold_3-snap.1859-T1
Valid prediction for snap_scaffold_3-snap.1834-T1
Valid prediction for snap_scaffold_3-snap.1858-T1
Valid prediction for Augustus_model.g4602.t1
Valid prediction for snap_scaffold_3-snap.1820-T1
Valid prediction for GlimmerHMM_glimmerT_7052-T1
Valid prediction for snap_scaffold_3-snap.1844-T1
Valid prediction for snap_scaffold_3-snap.1845-T1
Valid prediction for GlimmerHMM_glimmerT_7043-T1
Valid prediction for Augustus_model.g4604.t1
Valid prediction for snap_scaffold_3-snap.1840-T1
Valid prediction for Augustus_model.g4600.t1
Valid prediction for GlimmerHMM_glimmerT_7054-T1
Valid prediction for Augustus_model.g4597.t1
Valid prediction for Augustus_model.g4598.t1
Valid prediction for GlimmerHMM_glimmerT_7058-T1
Valid prediction for snap_scaffold_3-snap.1827-T1
Valid prediction for snap_scaffold_3-snap.1825-T1
Valid prediction for Augustus_model.g4595.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.g4591.t1
Valid prediction for snap_scaffold_3-snap.1818-T1
Valid prediction for snap_scaffold_3-snap.1843-T1
Valid prediction for Augustus_model.g4607.t1
Valid prediction for Augustus_model.g4603.t1
Valid prediction for GlimmerHMM_glimmerT_7038-T1
Valid prediction for snap_scaffold_3-snap.1828-T1
Valid prediction for GlimmerHMM_glimmerT_7046-T1
Valid prediction for snap_scaffold_3-snap.1850-T1
Valid prediction for GlimmerHMM_glimmerT_7036-T1
Valid prediction for GlimmerHMM_glimmerT_7031-T1
Valid prediction for snap_scaffold_3-snap.1855-T1
Valid prediction for GlimmerHMM_glimmerT_7059-T1
Valid prediction for GlimmerHMM_glimmerT_7037-T1
Valid prediction for GlimmerHMM_glimmerT_7042-T1
Valid prediction for snap_scaffold_3-snap.1829-T1
Valid prediction for GlimmerHMM_glimmerT_7033-T1
Valid prediction for snap_scaffold_3-snap.1832-T1
Valid prediction for GlimmerHMM_glimmerT_7053-T1
Valid prediction for snap_scaffold_3-snap.1833-T1
Valid prediction for GlimmerHMM_glimmerT_7040-T1
Valid prediction for GlimmerHMM_glimmerT_7028-T1
Valid prediction for GlimmerHMM_glimmerT_7057-T1
Valid prediction for snap_scaffold_3-snap.1857-T1
Valid prediction for snap_scaffold_3-snap.1823-T1
Valid prediction for snap_scaffold_3-snap.1847-T1
Valid prediction for snap_scaffold_3-snap.1848-T1
Valid prediction for Augustus_model.g4606.t1
Valid prediction for GlimmerHMM_glimmerT_7030-T1
Valid prediction for Augustus_model.g4605.t1
Valid prediction for snap_scaffold_3-snap.1841-T1
Valid prediction for Augustus_model.g4592.t1
Valid prediction for snap_scaffold_3-snap.1836-T1
Valid prediction for snap_scaffold_3-snap.1838-T1
Valid prediction for snap_scaffold_3-snap.1826-T1
Valid prediction for snap_scaffold_3-snap.1846-T1
Valid prediction for snap_scaffold_3-snap.1851-T1
Valid prediction for snap_scaffold_3-snap.1831-T1
Valid prediction for GlimmerHMM_glimmerT_7056-T1
Valid prediction for snap_scaffold_3-snap.1856-T1
Valid prediction for Augustus_model.g4599.t1
Valid prediction for GlimmerHMM_glimmerT_7034-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10240, rend_intergenic: 3357  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26718, rend_intergenic: 20202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37639, rend_intergenic: 31547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53671, rend_intergenic: 46257  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59788, rend_intergenic: 57393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75075, rend_intergenic: 60876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91520, rend_intergenic: 90379  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104139, rend_intergenic: 103081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125006, rend_intergenic: 121812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131293, rend_intergenic: 127648  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150434, rend_intergenic: 132300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157341, rend_intergenic: 154599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161440, rend_intergenic: 158126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180100, rend_intergenic: 172846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197234, rend_intergenic: 187917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199880
-exon list size: 336


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.1    
10.4    
10.7    
10.9    
11.2    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
13.9    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
29.0    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.2    
32.5    
32.8    
33.1    
33.4    
33.7    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.3    
66.6    
66.9    
67.2    
67.5    
67.8    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 10240, rend_intergenic: 3357  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26718, rend_intergenic: 20202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37639, rend_intergenic: 31547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53671, rend_intergenic: 46257  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59788, rend_intergenic: 57393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75075, rend_intergenic: 60876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91520, rend_intergenic: 90379  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104139, rend_intergenic: 103081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125006, rend_intergenic: 121812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131293, rend_intergenic: 127648  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150434, rend_intergenic: 132300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157341, rend_intergenic: 154599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161440, rend_intergenic: 158126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180100, rend_intergenic: 172846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197234, rend_intergenic: 187917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support