-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_2594634-2768805

-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_11-snap.689-T1
Valid prediction for snap_scaffold_11-snap.672-T1
Valid prediction for snap_scaffold_11-snap.670-T1
Valid prediction for snap_scaffold_11-snap.685-T1
Couldn't classify 24275, 24394
Sorry, prediction pasa_asmbl_5372.p1 fails validation.
(ATA)	 CC	24275-24394	GT	AGG
(GGC)	 AG	24736-24886	GT	GTG
(TTG)	 AG	25340-25521	CA	GAC
-recovered pasa_asmbl_5372.p1, terminal, 25340, 25521
-recovered pasa_asmbl_5372.p1, internal, 24736, 24886
Valid prediction for snap_scaffold_11-snap.695-T1
Valid prediction for Augustus_model.g17679.t1
Valid prediction for GlimmerHMM_glimmerT_26714-T1
Valid prediction for GlimmerHMM_glimmerT_26726-T1
Valid prediction for Augustus_model.g17680.t1
Valid prediction for snap_scaffold_11-snap.652-T1
Valid prediction for GlimmerHMM_glimmerT_26718-T1
Valid prediction for Augustus_model.g17681.t1
Valid prediction for GlimmerHMM_glimmerT_26720-T1
Valid prediction for snap_scaffold_11-snap.669-T1
Valid prediction for GlimmerHMM_glimmerT_26727-T1
Valid prediction for snap_scaffold_11-snap.665-T1
Valid prediction for GlimmerHMM_glimmerT_26716-T1
Valid prediction for snap_scaffold_11-snap.655-T1
Valid prediction for snap_scaffold_11-snap.687-T1
Valid prediction for snap_scaffold_11-snap.681-T1
Valid prediction for GlimmerHMM_glimmerT_26715-T1
Valid prediction for snap_scaffold_11-snap.667-T1
Valid prediction for GlimmerHMM_glimmerT_26713-T1
Valid prediction for Augustus_model.g17686.t1
Valid prediction for Augustus_model.g17678.t1
Valid prediction for snap_scaffold_11-snap.660-T1
Valid prediction for snap_scaffold_11-snap.682-T1
Valid prediction for GlimmerHMM_glimmerT_26724-T1
Couldn't classify 20343, 20876
Sorry, prediction pasa_asmbl_5371.p1 fails validation.
(CAC)	 CC	20343-20876	CC	CCC
Valid prediction for snap_scaffold_11-snap.678-T1
Valid prediction for snap_scaffold_11-snap.663-T1
Valid prediction for snap_scaffold_11-snap.680-T1
Valid prediction for snap_scaffold_11-snap.690-T1
Valid prediction for Augustus_model.g17684.t1
Valid prediction for snap_scaffold_11-snap.657-T1
Valid prediction for snap_scaffold_11-snap.671-T1
Valid prediction for GlimmerHMM_glimmerT_26710-T1
Valid prediction for snap_scaffold_11-snap.696-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.g17682.t1
Valid prediction for snap_scaffold_11-snap.654-T1
Valid prediction for snap_scaffold_11-snap.659-T1
Valid prediction for snap_scaffold_11-snap.676-T1
Valid prediction for GlimmerHMM_glimmerT_26725-T1
Valid prediction for snap_scaffold_11-snap.688-T1
Valid prediction for snap_scaffold_11-snap.656-T1
Valid prediction for snap_scaffold_11-snap.668-T1
Valid prediction for snap_scaffold_11-snap.692-T1
Valid prediction for snap_scaffold_11-snap.673-T1
Valid prediction for snap_scaffold_11-snap.686-T1
Valid prediction for snap_scaffold_11-snap.653-T1
Valid prediction for snap_scaffold_11-snap.658-T1
Valid prediction for snap_scaffold_11-snap.694-T1
Valid prediction for GlimmerHMM_glimmerT_26711-T1
Valid prediction for GlimmerHMM_glimmerT_26717-T1
Valid prediction for GlimmerHMM_glimmerT_26712-T1
Valid prediction for snap_scaffold_11-snap.697-T1
Valid prediction for snap_scaffold_11-snap.691-T1
Valid prediction for snap_scaffold_11-snap.683-T1
Valid prediction for snap_scaffold_11-snap.679-T1
Valid prediction for GlimmerHMM_glimmerT_26719-T1
Valid prediction for snap_scaffold_11-snap.693-T1
Valid prediction for snap_scaffold_11-snap.662-T1
Valid prediction for GlimmerHMM_glimmerT_26721-T1
Valid prediction for GlimmerHMM_glimmerT_26722-T1
Valid prediction for Augustus_model.g17683.t1
Valid prediction for Augustus_model.g17685.t1
Valid prediction for snap_scaffold_11-snap.661-T1
Valid prediction for snap_scaffold_11-snap.684-T1
Valid prediction for snap_scaffold_11-snap.677-T1
Valid prediction for snap_scaffold_11-snap.675-T1
Valid prediction for GlimmerHMM_glimmerT_26723-T1
Valid prediction for snap_scaffold_11-snap.664-T1
Valid prediction for snap_scaffold_11-snap.674-T1
Valid prediction for snap_scaffold_11-snap.666-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16569, rend_intergenic: 6839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16661, rend_intergenic: 16615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22322, rend_intergenic: 17375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25521, rend_intergenic: 23237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43204, rend_intergenic: 38883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66435, rend_intergenic: 61771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80213, rend_intergenic: 78083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105333, rend_intergenic: 104901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109557, rend_intergenic: 106413  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116718, rend_intergenic: 114776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119764, rend_intergenic: 116790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120227, rend_intergenic: 120015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124578, rend_intergenic: 120369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125555, rend_intergenic: 125312  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135430, rend_intergenic: 125804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154564, rend_intergenic: 136087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161697, rend_intergenic: 161252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168573, rend_intergenic: 166684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 174172
-exon list size: 281


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.8    
3.2    
3.5    
3.9    
4.2    
4.6    
4.9    
5.3    
5.7    
6.0    
6.4    
6.7    
7.1    
7.4    
7.8    
8.1    
8.5    
8.8    
9.2    
9.5    
9.9    
10.2    
10.6    
11.0    
11.3    
11.7    
12.0    
12.4    
12.7    
13.1    
13.4    
13.8    
14.1    
14.5    
14.8    
15.2    
15.5    
15.9    
16.3    
16.6    
17.0    
17.3    
17.7    
18.0    
18.4    
18.7    
19.1    
19.4    
19.8    
20.1    
20.5    
20.8    
21.2    
21.6    
21.9    
22.3    
22.6    
23.0    
23.3    
23.7    
24.0    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.5    
26.9    
27.2    
27.6    
27.9    
28.3    
28.6    
29.0    
29.3    
29.7    
30.0    
30.4    
30.7    
31.1    
31.4    
31.8    
32.2    
32.5    
32.9    
33.2    
33.6    
33.9    
34.3    
34.6    
35.0    
35.3    
35.7    
36.0    
36.4    
36.7    
37.1    
37.5    
37.8    
38.2    
38.5    
38.9    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.3    
41.7    
42.0    
42.4    
42.8    
43.1    
43.5    
43.8    
44.2    
44.5    
44.9    
45.2    
45.6    
45.9    
46.3    
46.6    
47.0    
47.3    
47.7    
48.1    
48.4    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.6    
51.9    
52.3    
52.7    
53.0    
53.4    
53.7    
54.1    
54.4    
54.8    
55.1    
55.5    
55.8    
56.2    
56.5    
56.9    
57.2    
57.6    
58.0    
58.3    
58.7    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.1    
61.5    
61.8    
62.2    
62.5    
62.9    
63.3    
63.6    
64.0    
64.3    
64.7    
65.0    
65.4    
65.7    
66.1    
66.4    
66.8    
67.1    
67.5    
67.8    
68.2    
68.6    
68.9    
69.3    
69.6    
70.0    
70.3    
70.7    
71.0    
71.4    
71.7    
72.1    
72.4    
72.8    
73.1    
73.5    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
76.0    
76.3    
76.7    
77.0    
77.4    
77.7    
78.1    
78.4    
78.8    
79.2    
79.5    
79.9    
80.2    
80.6    
80.9    
81.3    
81.6    
82.0    
82.3    
82.7    
83.0    
83.4    
83.7    
84.1    
84.5    
84.8    
85.2    
85.5    
85.9    
86.2    
86.6    
86.9    
87.3    
87.6    
88.0    
88.3    
88.7    
89.0    
89.4    
89.8    
90.1    
90.5    
90.8    
91.2    
91.5    
91.9    
92.2    
92.6    
92.9    
93.3    
93.6    
94.0    
94.3    
94.7    
95.1    
95.4    
95.8    
96.1    
96.5    
96.8    
97.2    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 21 predictions from path traversal
Error with prediction: snap lend_intergenic: 16569, rend_intergenic: 6839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16661, rend_intergenic: 16615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22322, rend_intergenic: 17375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25521, rend_intergenic: 23237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43204, rend_intergenic: 38883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66435, rend_intergenic: 61771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80213, rend_intergenic: 78083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105333, rend_intergenic: 104901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109557, rend_intergenic: 106413  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116718, rend_intergenic: 114776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119764, rend_intergenic: 116790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120227, rend_intergenic: 120015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124578, rend_intergenic: 120369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125555, rend_intergenic: 125312  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135430, rend_intergenic: 125804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154564, rend_intergenic: 136087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161697, rend_intergenic: 161252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168573, rend_intergenic: 166684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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