-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_17375711-17556689

-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_18869-T1
Valid prediction for snap_scaffold_7-snap.3308-T1
Valid prediction for snap_scaffold_7-snap.3325-T1
Valid prediction for Augustus_model.g12668.t1
Valid prediction for snap_scaffold_7-snap.3331-T1
Valid prediction for snap_scaffold_7-snap.3328-T1
Valid prediction for snap_scaffold_7-snap.3333-T1
Valid prediction for snap_scaffold_7-snap.3305-T1
Valid prediction for Augustus_model.g12669.t1
Valid prediction for snap_scaffold_7-snap.3334-T1
Valid prediction for GlimmerHMM_glimmerT_18878-T1
Valid prediction for snap_scaffold_7-snap.3354-T1
Valid prediction for snap_scaffold_7-snap.3315-T1
Valid prediction for snap_scaffold_7-snap.3343-T1
Valid prediction for GlimmerHMM_glimmerT_18879-T1
Valid prediction for GlimmerHMM_glimmerT_18863-T1
Valid prediction for snap_scaffold_7-snap.3339-T1
Valid prediction for snap_scaffold_7-snap.3322-T1
Valid prediction for snap_scaffold_7-snap.3310-T1
Valid prediction for snap_scaffold_7-snap.3326-T1
Valid prediction for GlimmerHMM_glimmerT_18872-T1
Valid prediction for snap_scaffold_7-snap.3346-T1
Valid prediction for snap_scaffold_7-snap.3321-T1
Valid prediction for snap_scaffold_7-snap.3352-T1
Valid prediction for snap_scaffold_7-snap.3336-T1
Valid prediction for GlimmerHMM_glimmerT_18881-T1
Valid prediction for snap_scaffold_7-snap.3312-T1
Valid prediction for GlimmerHMM_glimmerT_18875-T1
Valid prediction for snap_scaffold_7-snap.3319-T1
Valid prediction for Augustus_model.g12674.t1
Valid prediction for snap_scaffold_7-snap.3348-T1
Valid prediction for snap_scaffold_7-snap.3306-T1
Valid prediction for snap_scaffold_7-snap.3344-T1
Valid prediction for GlimmerHMM_glimmerT_18871-T1
Valid prediction for GlimmerHMM_glimmerT_18865-T1
Valid prediction for snap_scaffold_7-snap.3316-T1
Valid prediction for snap_scaffold_7-snap.3353-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_7-snap.3314-T1
Valid prediction for GlimmerHMM_glimmerT_18880-T1
Valid prediction for snap_scaffold_7-snap.3349-T1
Valid prediction for snap_scaffold_7-snap.3318-T1
Valid prediction for GlimmerHMM_glimmerT_18864-T1
Valid prediction for Augustus_model.g12670.t1
Valid prediction for snap_scaffold_7-snap.3332-T1
Valid prediction for snap_scaffold_7-snap.3311-T1
Valid prediction for GlimmerHMM_glimmerT_18861-T1
Valid prediction for snap_scaffold_7-snap.3341-T1
Valid prediction for snap_scaffold_7-snap.3317-T1
Valid prediction for Augustus_model.g12672.t1
Valid prediction for GlimmerHMM_glimmerT_18866-T1
Valid prediction for snap_scaffold_7-snap.3313-T1
Valid prediction for snap_scaffold_7-snap.3347-T1
Valid prediction for snap_scaffold_7-snap.3345-T1
Valid prediction for snap_scaffold_7-snap.3309-T1
Valid prediction for Augustus_model.g12673.t1
Valid prediction for snap_scaffold_7-snap.3351-T1
Valid prediction for snap_scaffold_7-snap.3337-T1
Valid prediction for GlimmerHMM_glimmerT_18870-T1
Valid prediction for snap_scaffold_7-snap.3324-T1
Valid prediction for snap_scaffold_7-snap.3342-T1
Valid prediction for GlimmerHMM_glimmerT_18882-T1
Valid prediction for snap_scaffold_7-snap.3307-T1
Valid prediction for snap_scaffold_7-snap.3320-T1
Valid prediction for snap_scaffold_7-snap.3338-T1
Valid prediction for snap_scaffold_7-snap.3323-T1
Valid prediction for GlimmerHMM_glimmerT_18874-T1
Valid prediction for snap_scaffold_7-snap.3330-T1
Valid prediction for GlimmerHMM_glimmerT_18867-T1
Valid prediction for GlimmerHMM_glimmerT_18876-T1
Valid prediction for GlimmerHMM_glimmerT_18873-T1
Valid prediction for snap_scaffold_7-snap.3329-T1
Valid prediction for snap_scaffold_7-snap.3327-T1
Valid prediction for snap_scaffold_7-snap.3335-T1
Valid prediction for snap_scaffold_7-snap.3350-T1
Valid prediction for GlimmerHMM_glimmerT_18868-T1
Valid prediction for snap_scaffold_7-snap.3304-T1
Valid prediction for Augustus_model.g12671.t1
Valid prediction for GlimmerHMM_glimmerT_18877-T1
Valid prediction for GlimmerHMM_glimmerT_18862-T1
Valid prediction for snap_scaffold_7-snap.3340-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16932, rend_intergenic: 2840  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26369, rend_intergenic: 24659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28908, rend_intergenic: 26792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34421, rend_intergenic: 30433  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34766, rend_intergenic: 34603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36988, rend_intergenic: 35962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44886, rend_intergenic: 40353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52323, rend_intergenic: 47124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61483, rend_intergenic: 56502  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63700, rend_intergenic: 61586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66450, rend_intergenic: 64930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84308, rend_intergenic: 83304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93460, rend_intergenic: 89217  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101507, rend_intergenic: 99236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108877, rend_intergenic: 105583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118325, rend_intergenic: 110543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120329, rend_intergenic: 119129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128673, rend_intergenic: 125650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139066, rend_intergenic: 130987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155124, rend_intergenic: 150405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155460, rend_intergenic: 155347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156702, rend_intergenic: 156302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159642, rend_intergenic: 156926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163695, rend_intergenic: 160982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171654, rend_intergenic: 166361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 180979
-exon list size: 276


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.2    
2.5    
2.9    
3.2    
3.6    
4.0    
4.3    
4.7    
5.0    
5.4    
5.8    
6.1    
6.5    
6.8    
7.2    
7.6    
7.9    
8.3    
8.6    
9.0    
9.4    
9.7    
10.1    
10.4    
10.8    
11.2    
11.5    
11.9    
12.2    
12.6    
12.9    
13.3    
13.7    
14.0    
14.4    
14.7    
15.1    
15.5    
15.8    
16.2    
16.5    
16.9    
17.3    
17.6    
18.0    
18.3    
18.7    
19.1    
19.4    
19.8    
20.1    
20.5    
20.9    
21.2    
21.6    
21.9    
22.3    
22.7    
23.0    
23.4    
23.7    
24.1    
24.5    
24.8    
25.2    
25.5    
25.9    
26.3    
26.6    
27.0    
27.3    
27.7    
28.1    
28.4    
28.8    
29.1    
29.5    
29.9    
30.2    
30.6    
30.9    
31.3    
31.7    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.5    
34.9    
35.3    
35.6    
36.0    
36.3    
36.7    
37.1    
37.4    
37.8    
38.1    
38.5    
38.8    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.4    
41.7    
42.1    
42.4    
42.8    
43.2    
43.5    
43.9    
44.2    
44.6    
45.0    
45.3    
45.7    
46.0    
46.4    
46.8    
47.1    
47.5    
47.8    
48.2    
48.6    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.4    
51.8    
52.2    
52.5    
52.9    
53.2    
53.6    
54.0    
54.3    
54.7    
55.0    
55.4    
55.8    
56.1    
56.5    
56.8    
57.2    
57.6    
57.9    
58.3    
58.6    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.2    
61.5    
61.9    
62.2    
62.6    
62.9    
63.3    
63.7    
64.0    
64.4    
64.7    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.3    
68.7    
69.1    
69.4    
69.8    
70.1    
70.5    
70.9    
71.2    
71.6    
71.9    
72.3    
72.7    
73.0    
73.4    
73.7    
74.1    
74.5    
74.8    
75.2    
75.5    
75.9    
76.3    
76.6    
77.0    
77.3    
77.7    
78.1    
78.4    
78.8    
79.1    
79.5    
79.9    
80.2    
80.6    
80.9    
81.3    
81.7    
82.0    
82.4    
82.7    
83.1    
83.5    
83.8    
84.2    
84.5    
84.9    
85.3    
85.6    
86.0    
86.3    
86.7    
87.1    
87.4    
87.8    
88.1    
88.5    
88.8    
89.2    
89.6    
89.9    
90.3    
90.6    
91.0    
91.4    
91.7    
92.1    
92.4    
92.8    
93.2    
93.5    
93.9    
94.2    
94.6    
95.0    
95.3    
95.7    
96.0    
96.4    
96.8    
97.1    
97.5    
97.8    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 16932, rend_intergenic: 2840  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26369, rend_intergenic: 24659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28908, rend_intergenic: 26792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34421, rend_intergenic: 30433  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34766, rend_intergenic: 34603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36988, rend_intergenic: 35962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44886, rend_intergenic: 40353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52323, rend_intergenic: 47124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61483, rend_intergenic: 56502  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63700, rend_intergenic: 61586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66450, rend_intergenic: 64930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84308, rend_intergenic: 83304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93460, rend_intergenic: 89217  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101507, rend_intergenic: 99236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108877, rend_intergenic: 105583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118325, rend_intergenic: 110543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120329, rend_intergenic: 119129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128673, rend_intergenic: 125650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139066, rend_intergenic: 130987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155124, rend_intergenic: 150405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155460, rend_intergenic: 155347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156702, rend_intergenic: 156302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159642, rend_intergenic: 156926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163695, rend_intergenic: 160982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171654, rend_intergenic: 166361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 48313
-exon list size: 52


building trellis

1.9    
3.7    
5.6    
7.4    
9.3    
11.1    
13.0    
14.8    
16.7    
18.5    
20.4    
22.2    
24.1    
25.9    
27.8    
29.6    
31.5    
33.3    
35.2    
37.0    
38.9    
40.7    
42.6    
44.4    
46.3    
48.1    
50.0    
51.9    
53.7    
55.6    
57.4    
59.3    
61.1    
63.0    
64.8    
66.7    
68.5    
70.4    
72.2    
74.1    
75.9    
77.8    
79.6    
81.5    
83.3    
85.2    
87.0    
88.9    
90.7    
92.6    
94.4    
96.3    
98.1    
-found 5 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 169945 - 180979
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal

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