-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_9/scaffold_9_14469625-14632749

-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_9-snap.2945-T1
Valid prediction for snap_scaffold_9-snap.2930-T1
Valid prediction for snap_scaffold_9-snap.2916-T1
Valid prediction for snap_scaffold_9-snap.2914-T1
Valid prediction for snap_scaffold_9-snap.2937-T1
Valid prediction for GlimmerHMM_glimmerT_23346-T1
Valid prediction for snap_scaffold_9-snap.2942-T1
Valid prediction for GlimmerHMM_glimmerT_23349-T1
Valid prediction for snap_scaffold_9-snap.2929-T1
Valid prediction for snap_scaffold_9-snap.2931-T1
Valid prediction for snap_scaffold_9-snap.2921-T1
Valid prediction for GlimmerHMM_glimmerT_23338-T1
Valid prediction for Augustus_model.g15547.t1
Valid prediction for snap_scaffold_9-snap.2923-T1
Valid prediction for GlimmerHMM_glimmerT_23345-T1
Valid prediction for GlimmerHMM_glimmerT_23348-T1
Valid prediction for Augustus_model.g15552.t1
Valid prediction for snap_scaffold_9-snap.2944-T1
Valid prediction for snap_scaffold_9-snap.2918-T1
Valid prediction for snap_scaffold_9-snap.2939-T1
Valid prediction for GlimmerHMM_glimmerT_23340-T1
Valid prediction for snap_scaffold_9-snap.2927-T1
Valid prediction for snap_scaffold_9-snap.2935-T1
Valid prediction for snap_scaffold_9-snap.2919-T1
Valid prediction for GlimmerHMM_glimmerT_23344-T1
Valid prediction for snap_scaffold_9-snap.2933-T1
Valid prediction for Augustus_model.g15545.t1
Valid prediction for Augustus_model.g15546.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_9-snap.2926-T1
Valid prediction for GlimmerHMM_glimmerT_23357-T1
Valid prediction for Augustus_model.g15549.t1
Valid prediction for GlimmerHMM_glimmerT_23342-T1
Valid prediction for GlimmerHMM_glimmerT_23352-T1
Couldn't classify 39029, 39439
Sorry, prediction pasa_asmbl_55483.p1 fails validation.
(AAA)	 CC	39029-39439	GC	GAG
Valid prediction for GlimmerHMM_glimmerT_23356-T1
Valid prediction for GlimmerHMM_glimmerT_23337-T1
Valid prediction for snap_scaffold_9-snap.2940-T1
Valid prediction for snap_scaffold_9-snap.2934-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_9-snap.2943-T1
Valid prediction for Augustus_model.g15544.t1
Valid prediction for snap_scaffold_9-snap.2922-T1
Valid prediction for snap_scaffold_9-snap.2938-T1
Valid prediction for Augustus_model.g15548.t1
Valid prediction for GlimmerHMM_glimmerT_23350-T1
Valid prediction for GlimmerHMM_glimmerT_23353-T1
Valid prediction for snap_scaffold_9-snap.2946-T1
Valid prediction for snap_scaffold_9-snap.2932-T1
Valid prediction for snap_scaffold_9-snap.2941-T1
Valid prediction for Augustus_model.g15551.t1
Valid prediction for snap_scaffold_9-snap.2917-T1
Valid prediction for snap_scaffold_9-snap.2928-T1
Valid prediction for Augustus_model.g15554.t1
Valid prediction for GlimmerHMM_glimmerT_23339-T1
Valid prediction for GlimmerHMM_glimmerT_23358-T1
Valid prediction for snap_scaffold_9-snap.2920-T1
Valid prediction for GlimmerHMM_glimmerT_23347-T1
Valid prediction for snap_scaffold_9-snap.2924-T1
Valid prediction for GlimmerHMM_glimmerT_23341-T1
Valid prediction for GlimmerHMM_glimmerT_23354-T1
Valid prediction for Augustus_model.g15550.t1
Valid prediction for snap_scaffold_9-snap.2915-T1
Valid prediction for GlimmerHMM_glimmerT_23343-T1
Valid prediction for snap_scaffold_9-snap.2925-T1
Valid prediction for GlimmerHMM_glimmerT_23355-T1
Valid prediction for snap_scaffold_9-snap.2936-T1
Valid prediction for GlimmerHMM_glimmerT_23351-T1
Valid prediction for Augustus_model.g15553.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 23314, rend_intergenic: 23311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13241, rend_intergenic: 4873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14163, rend_intergenic: 13543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28025, rend_intergenic: 19414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40016, rend_intergenic: 36112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48497, rend_intergenic: 45795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84924, rend_intergenic: 52190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87758, rend_intergenic: 84931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94171, rend_intergenic: 89370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106689, rend_intergenic: 94709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110420, rend_intergenic: 107336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122500, rend_intergenic: 117574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131483, rend_intergenic: 129106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138917, rend_intergenic: 135287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148465, rend_intergenic: 143018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155843, rend_intergenic: 148689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 163125
-exon list size: 259


building trellis

0.4    
0.8    
1.1    
1.5    
1.9    
2.3    
2.7    
3.1    
3.4    
3.8    
4.2    
4.6    
5.0    
5.4    
5.7    
6.1    
6.5    
6.9    
7.3    
7.7    
8.0    
8.4    
8.8    
9.2    
9.6    
10.0    
10.3    
10.7    
11.1    
11.5    
11.9    
12.3    
12.6    
13.0    
13.4    
13.8    
14.2    
14.6    
14.9    
15.3    
15.7    
16.1    
16.5    
16.9    
17.2    
17.6    
18.0    
18.4    
18.8    
19.2    
19.5    
19.9    
20.3    
20.7    
21.1    
21.5    
21.8    
22.2    
22.6    
23.0    
23.4    
23.8    
24.1    
24.5    
24.9    
25.3    
25.7    
26.1    
26.4    
26.8    
27.2    
27.6    
28.0    
28.4    
28.7    
29.1    
29.5    
29.9    
30.3    
30.7    
31.0    
31.4    
31.8    
32.2    
32.6    
33.0    
33.3    
33.7    
34.1    
34.5    
34.9    
35.2    
35.6    
36.0    
36.4    
36.8    
37.2    
37.5    
37.9    
38.3    
38.7    
39.1    
39.5    
39.8    
40.2    
40.6    
41.0    
41.4    
41.8    
42.1    
42.5    
42.9    
43.3    
43.7    
44.1    
44.4    
44.8    
45.2    
45.6    
46.0    
46.4    
46.7    
47.1    
47.5    
47.9    
48.3    
48.7    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.3    
51.7    
52.1    
52.5    
52.9    
53.3    
53.6    
54.0    
54.4    
54.8    
55.2    
55.6    
55.9    
56.3    
56.7    
57.1    
57.5    
57.9    
58.2    
58.6    
59.0    
59.4    
59.8    
60.2    
60.5    
60.9    
61.3    
61.7    
62.1    
62.5    
62.8    
63.2    
63.6    
64.0    
64.4    
64.8    
65.1    
65.5    
65.9    
66.3    
66.7    
67.0    
67.4    
67.8    
68.2    
68.6    
69.0    
69.3    
69.7    
70.1    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.8    
73.2    
73.6    
73.9    
74.3    
74.7    
75.1    
75.5    
75.9    
76.2    
76.6    
77.0    
77.4    
77.8    
78.2    
78.5    
78.9    
79.3    
79.7    
80.1    
80.5    
80.8    
81.2    
81.6    
82.0    
82.4    
82.8    
83.1    
83.5    
83.9    
84.3    
84.7    
85.1    
85.4    
85.8    
86.2    
86.6    
87.0    
87.4    
87.7    
88.1    
88.5    
88.9    
89.3    
89.7    
90.0    
90.4    
90.8    
91.2    
91.6    
92.0    
92.3    
92.7    
93.1    
93.5    
93.9    
94.3    
94.6    
95.0    
95.4    
95.8    
96.2    
96.6    
96.9    
97.3    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 25 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 23314, rend_intergenic: 23311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13241, rend_intergenic: 4873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14163, rend_intergenic: 13543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28025, rend_intergenic: 19414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40016, rend_intergenic: 36112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48497, rend_intergenic: 45795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84924, rend_intergenic: 52190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87758, rend_intergenic: 84931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94171, rend_intergenic: 89370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106689, rend_intergenic: 94709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110420, rend_intergenic: 107336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122500, rend_intergenic: 117574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131483, rend_intergenic: 129106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138917, rend_intergenic: 135287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148465, rend_intergenic: 143018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155843, rend_intergenic: 148689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11249
-exon list size: 10


building trellis

8.3    
16.7    
25.0    
33.3    
41.7    
50.0    
58.3    
66.7    
75.0    
83.3    
91.7    
-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