-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2/scaffold_2_11943253-12130466

-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_4709-T1
Valid prediction for snap_scaffold_2-snap.2328-T1
Valid prediction for GeneMark_model.7524_t
Valid prediction for snap_scaffold_2-snap.2322-T1
Valid prediction for snap_scaffold_2-snap.2335-T1
Valid prediction for snap_scaffold_2-snap.2325-T1
Valid prediction for GeneMark_model.7517_t
Valid prediction for snap_scaffold_2-snap.2334-T1
Valid prediction for GeneMark_model.7533_t
Valid prediction for GeneMark_model.7516_t
Valid prediction for Augustus_model.g3167.t1
Valid prediction for Augustus_model.g3169.t1
Valid prediction for GlimmerHMM_glimmerT_4701-T1
Valid prediction for GlimmerHMM_glimmerT_4707-T1
Valid prediction for snap_scaffold_2-snap.2324-T1
Valid prediction for GeneMark_model.7521_t
Valid prediction for snap_scaffold_2-snap.2330-T1
Valid prediction for snap_scaffold_2-snap.2338-T1
Valid prediction for GeneMark_model.7518_t
Valid prediction for GeneMark_model.7539_t
Valid prediction for GeneMark_model.7528_t
Valid prediction for GeneMark_model.7526_t
Valid prediction for GlimmerHMM_glimmerT_4702-T1
Valid prediction for snap_scaffold_2-snap.2321-T1
Valid prediction for snap_scaffold_2-snap.2333-T1
Valid prediction for GeneMark_model.7529_t
Valid prediction for snap_scaffold_2-snap.2327-T1
Valid prediction for GlimmerHMM_glimmerT_4704-T1
Valid prediction for GeneMark_model.7514_t
Valid prediction for GlimmerHMM_glimmerT_4708-T1
Valid prediction for GeneMark_model.7530_t
Valid prediction for snap_scaffold_2-snap.2331-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 GeneMark_model.7536_t
Valid prediction for GlimmerHMM_glimmerT_4705-T1
Valid prediction for GeneMark_model.7525_t
Valid prediction for GeneMark_model.7540_t
Valid prediction for GlimmerHMM_glimmerT_4699-T1
Valid prediction for GlimmerHMM_glimmerT_4698-T1
Valid prediction for GlimmerHMM_glimmerT_4712-T1
Valid prediction for GeneMark_model.7515_t
Valid prediction for GlimmerHMM_glimmerT_4714-T1
Valid prediction for snap_scaffold_2-snap.2339-T1
Valid prediction for Augustus_model.g3168.t1
Valid prediction for GlimmerHMM_glimmerT_4696-T1
Valid prediction for GeneMark_model.7527_t
Valid prediction for GeneMark_model.7532_t
Valid prediction for snap_scaffold_2-snap.2326-T1
Valid prediction for Augustus_model.g3164.t1
Valid prediction for Augustus_model.g3170.t1
Valid prediction for GeneMark_model.7522_t
Valid prediction for GlimmerHMM_glimmerT_4711-T1
Valid prediction for snap_scaffold_2-snap.2337-T1
Valid prediction for GeneMark_model.7531_t
Valid prediction for GeneMark_model.7519_t
Valid prediction for GlimmerHMM_glimmerT_4706-T1
Valid prediction for GlimmerHMM_glimmerT_4710-T1
Valid prediction for GeneMark_model.7534_t
Valid prediction for GlimmerHMM_glimmerT_4703-T1
Valid prediction for Augustus_model.g3166.t1
Valid prediction for GlimmerHMM_glimmerT_4713-T1
Valid prediction for GeneMark_model.7523_t
Valid prediction for snap_scaffold_2-snap.2329-T1
Valid prediction for GlimmerHMM_glimmerT_4697-T1
Valid prediction for snap_scaffold_2-snap.2323-T1
Valid prediction for GlimmerHMM_glimmerT_4700-T1
Valid prediction for snap_scaffold_2-snap.2336-T1
Valid prediction for GeneMark_model.7535_t
Valid prediction for GeneMark_model.7520_t
Valid prediction for Augustus_model.g3165.t1
Valid prediction for Augustus_model.g3171.t1
Valid prediction for snap_scaffold_2-snap.2332-T1
Valid prediction for GeneMark_model.7538_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 55919, rend_intergenic: 53818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84295, rend_intergenic: 83448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179880, rend_intergenic: 179629  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 187214
-exon list size: 280


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.8    
3.2    
3.5    
3.9    
4.3    
4.6    
5.0    
5.3    
5.7    
6.0    
6.4    
6.7    
7.1    
7.4    
7.8    
8.2    
8.5    
8.9    
9.2    
9.6    
9.9    
10.3    
10.6    
11.0    
11.3    
11.7    
12.1    
12.4    
12.8    
13.1    
13.5    
13.8    
14.2    
14.5    
14.9    
15.2    
15.6    
16.0    
16.3    
16.7    
17.0    
17.4    
17.7    
18.1    
18.4    
18.8    
19.1    
19.5    
19.9    
20.2    
20.6    
20.9    
21.3    
21.6    
22.0    
22.3    
22.7    
23.0    
23.4    
23.8    
24.1    
24.5    
24.8    
25.2    
25.5    
25.9    
26.2    
26.6    
27.0    
27.3    
27.7    
28.0    
28.4    
28.7    
29.1    
29.4    
29.8    
30.1    
30.5    
30.9    
31.2    
31.6    
31.9    
32.3    
32.6    
33.0    
33.3    
33.7    
34.0    
34.4    
34.8    
35.1    
35.5    
35.8    
36.2    
36.5    
36.9    
37.2    
37.6    
37.9    
38.3    
38.7    
39.0    
39.4    
39.7    
40.1    
40.4    
40.8    
41.1    
41.5    
41.8    
42.2    
42.6    
42.9    
43.3    
43.6    
44.0    
44.3    
44.7    
45.0    
45.4    
45.7    
46.1    
46.5    
46.8    
47.2    
47.5    
47.9    
48.2    
48.6    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.4    
51.8    
52.1    
52.5    
52.8    
53.2    
53.5    
53.9    
54.3    
54.6    
55.0    
55.3    
55.7    
56.0    
56.4    
56.7    
57.1    
57.4    
57.8    
58.2    
58.5    
58.9    
59.2    
59.6    
59.9    
60.3    
60.6    
61.0    
61.3    
61.7    
62.1    
62.4    
62.8    
63.1    
63.5    
63.8    
64.2    
64.5    
64.9    
65.2    
65.6    
66.0    
66.3    
66.7    
67.0    
67.4    
67.7    
68.1    
68.4    
68.8    
69.1    
69.5    
69.9    
70.2    
70.6    
70.9    
71.3    
71.6    
72.0    
72.3    
72.7    
73.0    
73.4    
73.8    
74.1    
74.5    
74.8    
75.2    
75.5    
75.9    
76.2    
76.6    
77.0    
77.3    
77.7    
78.0    
78.4    
78.7    
79.1    
79.4    
79.8    
80.1    
80.5    
80.9    
81.2    
81.6    
81.9    
82.3    
82.6    
83.0    
83.3    
83.7    
84.0    
84.4    
84.8    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.2    
87.6    
87.9    
88.3    
88.7    
89.0    
89.4    
89.7    
90.1    
90.4    
90.8    
91.1    
91.5    
91.8    
92.2    
92.6    
92.9    
93.3    
93.6    
94.0    
94.3    
94.7    
95.0    
95.4    
95.7    
96.1    
96.5    
96.8    
97.2    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 16 predictions from path traversal
Error with prediction: snap lend_intergenic: 55919, rend_intergenic: 53818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84295, rend_intergenic: 83448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179880, rend_intergenic: 179629  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 8 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 171413 - 187214
-exon list size: 37


building trellis

2.6    
5.1    
7.7    
10.3    
12.8    
15.4    
17.9    
20.5    
23.1    
25.6    
28.2    
30.8    
33.3    
35.9    
38.5    
41.0    
43.6    
46.2    
48.7    
51.3    
53.8    
56.4    
59.0    
61.5    
64.1    
66.7    
69.2    
71.8    
74.4    
76.9    
79.5    
82.1    
84.6    
87.2    
89.7    
92.3    
94.9    
97.4    
-found 2 predictions from path traversal
GOT 5prime partial gene.

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