-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_10832668-11104541

-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_30021-T1
Valid prediction for snap_scaffold_12-snap.2047-T1
Valid prediction for GlimmerHMM_glimmerT_30018-T1
Valid prediction for GlimmerHMM_glimmerT_30017-T1
Valid prediction for GlimmerHMM_glimmerT_30040-T1
Valid prediction for snap_scaffold_12-snap.2041-T1
Valid prediction for Augustus_model.g19869.t1
Valid prediction for Augustus_model.g19862.t1
Valid prediction for snap_scaffold_12-snap.2065-T1
Valid prediction for snap_scaffold_12-snap.2031-T1
Valid prediction for snap_scaffold_12-snap.2045-T1
Valid prediction for snap_scaffold_12-snap.2054-T1
Valid prediction for Augustus_model.g19859.t1
Valid prediction for snap_scaffold_12-snap.2036-T1
Valid prediction for snap_scaffold_12-snap.2052-T1
Valid prediction for Augustus_model.g19874.t1
Valid prediction for Augustus_model.g19873.t1
Valid prediction for snap_scaffold_12-snap.2067-T1
Valid prediction for GlimmerHMM_glimmerT_30023-T1
Valid prediction for snap_scaffold_12-snap.2039-T1
Valid prediction for GlimmerHMM_glimmerT_30032-T1
Valid prediction for GlimmerHMM_glimmerT_30029-T1
Valid prediction for snap_scaffold_12-snap.2060-T1
Valid prediction for snap_scaffold_12-snap.2068-T1
Valid prediction for Augustus_model.g19858.t1
Valid prediction for GlimmerHMM_glimmerT_30037-T1
Valid prediction for GlimmerHMM_glimmerT_30027-T1
Valid prediction for Augustus_model.g19870.t1
Valid prediction for GlimmerHMM_glimmerT_30015-T1
Valid prediction for Augustus_model.g19861.t1
Valid prediction for GlimmerHMM_glimmerT_30025-T1
Valid prediction for snap_scaffold_12-snap.2064-T1
Valid prediction for snap_scaffold_12-snap.2042-T1
Valid prediction for GlimmerHMM_glimmerT_30019-T1
Valid prediction for snap_scaffold_12-snap.2030-T1
Valid prediction for GlimmerHMM_glimmerT_30039-T1
Valid prediction for Augustus_model.g19860.t1
Valid prediction for snap_scaffold_12-snap.2048-T1
Valid prediction for GlimmerHMM_glimmerT_30031-T1
Valid prediction for snap_scaffold_12-snap.2050-T1
Valid prediction for snap_scaffold_12-snap.2059-T1
Valid prediction for GlimmerHMM_glimmerT_30036-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.2061-T1
Valid prediction for snap_scaffold_12-snap.2057-T1
Valid prediction for Augustus_model.g19871.t1
Valid prediction for snap_scaffold_12-snap.2056-T1
Valid prediction for snap_scaffold_12-snap.2046-T1
Valid prediction for snap_scaffold_12-snap.2051-T1
Valid prediction for Augustus_model.g19872.t1
Valid prediction for snap_scaffold_12-snap.2044-T1
Valid prediction for snap_scaffold_12-snap.2038-T1
Valid prediction for GlimmerHMM_glimmerT_30022-T1
Valid prediction for GlimmerHMM_glimmerT_30026-T1
Valid prediction for snap_scaffold_12-snap.2063-T1
Valid prediction for Augustus_model.g19865.t1
Valid prediction for GlimmerHMM_glimmerT_30038-T1
Valid prediction for GlimmerHMM_glimmerT_30020-T1
Valid prediction for snap_scaffold_12-snap.2034-T1
Valid prediction for snap_scaffold_12-snap.2066-T1
Valid prediction for snap_scaffold_12-snap.2037-T1
Valid prediction for snap_scaffold_12-snap.2033-T1
Valid prediction for snap_scaffold_12-snap.2040-T1
Valid prediction for GlimmerHMM_glimmerT_30034-T1
Valid prediction for GlimmerHMM_glimmerT_30035-T1
Valid prediction for GlimmerHMM_glimmerT_30033-T1
Couldn't classify 70016, 70117
Couldn't classify 71993, 72232
Sorry, prediction pasa_asmbl_8779.p1 fails validation.
(AAC)	 AG	70016-70117	GT	TGG
(ATG)	 AG	71993-72232	GT	AGG
-recovered pasa_asmbl_8779.p1, initial, 71993, 72232
-recovered pasa_asmbl_8779.p1, internal, 70016, 70117
-recovered pasa_asmbl_8779.p1, internal, 71993, 72232
Valid prediction for snap_scaffold_12-snap.2043-T1
Valid prediction for snap_scaffold_12-snap.2035-T1
Valid prediction for GlimmerHMM_glimmerT_30028-T1
Valid prediction for snap_scaffold_12-snap.2032-T1
Valid prediction for GlimmerHMM_glimmerT_30024-T1
Valid prediction for Augustus_model.g19863.t1
Valid prediction for snap_scaffold_12-snap.2058-T1
Valid prediction for Augustus_model.g19864.t1
Valid prediction for Augustus_model.g19866.t1
Valid prediction for snap_scaffold_12-snap.2049-T1
Valid prediction for GlimmerHMM_glimmerT_30016-T1
Valid prediction for Augustus_model.g19867.t1
Valid prediction for snap_scaffold_12-snap.2053-T1
Valid prediction for snap_scaffold_12-snap.2055-T1
Valid prediction for Augustus_model.g19868.t1
Valid prediction for GlimmerHMM_glimmerT_30030-T1
Valid prediction for snap_scaffold_12-snap.2062-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 79222, rend_intergenic: 74402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87758, rend_intergenic: 85725  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89553, rend_intergenic: 89384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97341, rend_intergenic: 91339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118334, rend_intergenic: 110684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124596, rend_intergenic: 120568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139748, rend_intergenic: 138668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154991, rend_intergenic: 147432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 248811, rend_intergenic: 245047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265880, rend_intergenic: 253978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 271874
-exon list size: 278


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.9    
3.2    
3.6    
3.9    
4.3    
4.6    
5.0    
5.4    
5.7    
6.1    
6.4    
6.8    
7.1    
7.5    
7.9    
8.2    
8.6    
8.9    
9.3    
9.6    
10.0    
10.4    
10.7    
11.1    
11.4    
11.8    
12.1    
12.5    
12.9    
13.2    
13.6    
13.9    
14.3    
14.6    
15.0    
15.4    
15.7    
16.1    
16.4    
16.8    
17.1    
17.5    
17.9    
18.2    
18.6    
18.9    
19.3    
19.6    
20.0    
20.4    
20.7    
21.1    
21.4    
21.8    
22.1    
22.5    
22.9    
23.2    
23.6    
23.9    
24.3    
24.6    
25.0    
25.4    
25.7    
26.1    
26.4    
26.8    
27.1    
27.5    
27.9    
28.2    
28.6    
28.9    
29.3    
29.6    
30.0    
30.4    
30.7    
31.1    
31.4    
31.8    
32.1    
32.5    
32.9    
33.2    
33.6    
33.9    
34.3    
34.6    
35.0    
35.4    
35.7    
36.1    
36.4    
36.8    
37.1    
37.5    
37.9    
38.2    
38.6    
38.9    
39.3    
39.6    
40.0    
40.4    
40.7    
41.1    
41.4    
41.8    
42.1    
42.5    
42.9    
43.2    
43.6    
43.9    
44.3    
44.6    
45.0    
45.4    
45.7    
46.1    
46.4    
46.8    
47.1    
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    
52.9    
53.2    
53.6    
53.9    
54.3    
54.6    
55.0    
55.4    
55.7    
56.1    
56.4    
56.8    
57.1    
57.5    
57.9    
58.2    
58.6    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.4    
61.8    
62.1    
62.5    
62.9    
63.2    
63.6    
63.9    
64.3    
64.6    
65.0    
65.4    
65.7    
66.1    
66.4    
66.8    
67.1    
67.5    
67.9    
68.2    
68.6    
68.9    
69.3    
69.6    
70.0    
70.4    
70.7    
71.1    
71.4    
71.8    
72.1    
72.5    
72.9    
73.2    
73.6    
73.9    
74.3    
74.6    
75.0    
75.4    
75.7    
76.1    
76.4    
76.8    
77.1    
77.5    
77.9    
78.2    
78.6    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.4    
81.8    
82.1    
82.5    
82.9    
83.2    
83.6    
83.9    
84.3    
84.6    
85.0    
85.4    
85.7    
86.1    
86.4    
86.8    
87.1    
87.5    
87.9    
88.2    
88.6    
88.9    
89.3    
89.6    
90.0    
90.4    
90.7    
91.1    
91.4    
91.8    
92.1    
92.5    
92.9    
93.2    
93.6    
93.9    
94.3    
94.6    
95.0    
95.4    
95.7    
96.1    
96.4    
96.8    
97.1    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 79222, rend_intergenic: 74402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87758, rend_intergenic: 85725  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89553, rend_intergenic: 89384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97341, rend_intergenic: 91339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118334, rend_intergenic: 110684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124596, rend_intergenic: 120568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139748, rend_intergenic: 138668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154991, rend_intergenic: 147432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 248811, rend_intergenic: 245047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265880, rend_intergenic: 253978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support