-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_330042-520626

-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_12-snap.91-T1
Valid prediction for snap_scaffold_12-snap.105-T1
Valid prediction for GlimmerHMM_glimmerT_28709-T1
Valid prediction for GlimmerHMM_glimmerT_28719-T1
Valid prediction for GlimmerHMM_glimmerT_28717-T1
Valid prediction for snap_scaffold_12-snap.99-T1
Valid prediction for snap_scaffold_12-snap.96-T1
Valid prediction for GlimmerHMM_glimmerT_28714-T1
Valid prediction for snap_scaffold_12-snap.122-T1
Valid prediction for snap_scaffold_12-snap.110-T1
Valid prediction for snap_scaffold_12-snap.124-T1
Valid prediction for snap_scaffold_12-snap.126-T1
Valid prediction for snap_scaffold_12-snap.92-T1
Valid prediction for GlimmerHMM_glimmerT_28707-T1
Valid prediction for snap_scaffold_12-snap.116-T1
Valid prediction for snap_scaffold_12-snap.106-T1
Valid prediction for snap_scaffold_12-snap.111-T1
Valid prediction for snap_scaffold_12-snap.87-T1
Valid prediction for snap_scaffold_12-snap.102-T1
Valid prediction for snap_scaffold_12-snap.81-T1
Valid prediction for snap_scaffold_12-snap.119-T1
Valid prediction for snap_scaffold_12-snap.121-T1
Valid prediction for snap_scaffold_12-snap.112-T1
Valid prediction for snap_scaffold_12-snap.88-T1
Valid prediction for snap_scaffold_12-snap.115-T1
Valid prediction for snap_scaffold_12-snap.101-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.83-T1
Valid prediction for snap_scaffold_12-snap.117-T1
Valid prediction for snap_scaffold_12-snap.80-T1
Valid prediction for GlimmerHMM_glimmerT_28710-T1
Valid prediction for Augustus_model.g19007.t1
Valid prediction for snap_scaffold_12-snap.109-T1
Valid prediction for GlimmerHMM_glimmerT_28711-T1
Valid prediction for snap_scaffold_12-snap.107-T1
Valid prediction for snap_scaffold_12-snap.94-T1
Valid prediction for GlimmerHMM_glimmerT_28705-T1
Valid prediction for snap_scaffold_12-snap.97-T1
Valid prediction for GlimmerHMM_glimmerT_28716-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 snap_scaffold_12-snap.98-T1
Valid prediction for snap_scaffold_12-snap.114-T1
Valid prediction for GlimmerHMM_glimmerT_28720-T1
Valid prediction for snap_scaffold_12-snap.118-T1
Valid prediction for snap_scaffold_12-snap.84-T1
Valid prediction for GlimmerHMM_glimmerT_28712-T1
Valid prediction for snap_scaffold_12-snap.125-T1
Valid prediction for GlimmerHMM_glimmerT_28706-T1
Valid prediction for GlimmerHMM_glimmerT_28721-T1
Valid prediction for snap_scaffold_12-snap.89-T1
Valid prediction for snap_scaffold_12-snap.120-T1
Valid prediction for snap_scaffold_12-snap.93-T1
Valid prediction for snap_scaffold_12-snap.82-T1
Valid prediction for snap_scaffold_12-snap.108-T1
Valid prediction for snap_scaffold_12-snap.123-T1
Valid prediction for snap_scaffold_12-snap.86-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.90-T1
Valid prediction for snap_scaffold_12-snap.104-T1
Valid prediction for snap_scaffold_12-snap.85-T1
Valid prediction for GlimmerHMM_glimmerT_28718-T1
Valid prediction for GlimmerHMM_glimmerT_28715-T1
Valid prediction for snap_scaffold_12-snap.103-T1
Valid prediction for GlimmerHMM_glimmerT_28713-T1
Valid prediction for snap_scaffold_12-snap.113-T1
Valid prediction for snap_scaffold_12-snap.100-T1
Valid prediction for Augustus_model.g19008.t1
Valid prediction for GlimmerHMM_glimmerT_28708-T1
Valid prediction for GlimmerHMM_glimmerT_28704-T1
Valid prediction for snap_scaffold_12-snap.95-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15319, rend_intergenic: 5889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21729, rend_intergenic: 17824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29427, rend_intergenic: 26861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36772, rend_intergenic: 30994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45003, rend_intergenic: 40385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51218, rend_intergenic: 49173  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55430, rend_intergenic: 54490  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70874, rend_intergenic: 70077  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110049, rend_intergenic: 100391  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122693, rend_intergenic: 114855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160631, rend_intergenic: 159119  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169213, rend_intergenic: 163850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184514, rend_intergenic: 182602  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188587, rend_intergenic: 185815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 40121, rend_intergenic: 40118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 190585
-exon list size: 208


building trellis

0.5    
1.0    
1.4    
1.9    
2.4    
2.9    
3.3    
3.8    
4.3    
4.8    
5.2    
5.7    
6.2    
6.7    
7.1    
7.6    
8.1    
8.6    
9.0    
9.5    
10.0    
10.5    
11.0    
11.4    
11.9    
12.4    
12.9    
13.3    
13.8    
14.3    
14.8    
15.2    
15.7    
16.2    
16.7    
17.1    
17.6    
18.1    
18.6    
19.0    
19.5    
20.0    
20.5    
21.0    
21.4    
21.9    
22.4    
22.9    
23.3    
23.8    
24.3    
24.8    
25.2    
25.7    
26.2    
26.7    
27.1    
27.6    
28.1    
28.6    
29.0    
29.5    
30.0    
30.5    
31.0    
31.4    
31.9    
32.4    
32.9    
33.3    
33.8    
34.3    
34.8    
35.2    
35.7    
36.2    
36.7    
37.1    
37.6    
38.1    
38.6    
39.0    
39.5    
40.0    
40.5    
41.0    
41.4    
41.9    
42.4    
42.9    
43.3    
43.8    
44.3    
44.8    
45.2    
45.7    
46.2    
46.7    
47.1    
47.6    
48.1    
48.6    
49.0    
49.5    
50.0    
50.5    
51.0    
51.4    
51.9    
52.4    
52.9    
53.3    
53.8    
54.3    
54.8    
55.2    
55.7    
56.2    
56.7    
57.1    
57.6    
58.1    
58.6    
59.0    
59.5    
60.0    
60.5    
61.0    
61.4    
61.9    
62.4    
62.9    
63.3    
63.8    
64.3    
64.8    
65.2    
65.7    
66.2    
66.7    
67.1    
67.6    
68.1    
68.6    
69.0    
69.5    
70.0    
70.5    
71.0    
71.4    
71.9    
72.4    
72.9    
73.3    
73.8    
74.3    
74.8    
75.2    
75.7    
76.2    
76.7    
77.1    
77.6    
78.1    
78.6    
79.0    
79.5    
80.0    
80.5    
81.0    
81.4    
81.9    
82.4    
82.9    
83.3    
83.8    
84.3    
84.8    
85.2    
85.7    
86.2    
86.7    
87.1    
87.6    
88.1    
88.6    
89.0    
89.5    
90.0    
90.5    
91.0    
91.4    
91.9    
92.4    
92.9    
93.3    
93.8    
94.3    
94.8    
95.2    
95.7    
96.2    
96.7    
97.1    
97.6    
98.1    
98.6    
99.0    
99.5    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 15319, rend_intergenic: 5889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21729, rend_intergenic: 17824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29427, rend_intergenic: 26861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36772, rend_intergenic: 30994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45003, rend_intergenic: 40385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51218, rend_intergenic: 49173  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55430, rend_intergenic: 54490  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70874, rend_intergenic: 70077  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110049, rend_intergenic: 100391  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122693, rend_intergenic: 114855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160631, rend_intergenic: 159119  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169213, rend_intergenic: 163850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184514, rend_intergenic: 182602  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188587, rend_intergenic: 185815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 40121, rend_intergenic: 40118  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

-building DP trellis

-building trellis in range 1 - 15013
-exon list size: 6


building trellis

12.5    
25.0    
37.5    
50.0    
62.5    
75.0    
87.5    
-found 1 predictions from path traversal

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

-building DP trellis

-building trellis in range 2611 - 15013
-exon list size: 5


building trellis

14.3    
28.6    
42.9    
57.1    
71.4    
85.7    
-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

-building DP trellis

-building trellis in range 179618 - 190585
-exon list size: 9


building trellis

9.1    
18.2    
27.3    
36.4    
45.5    
54.5    
63.6    
72.7    
81.8    
90.9    
-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