-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_4557166-4705268

-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_15-snap.981-T1
Valid prediction for snap_scaffold_15-snap.976-T1
Valid prediction for GlimmerHMM_glimmerT_36058-T1
Valid prediction for snap_scaffold_15-snap.1001-T1
Valid prediction for snap_scaffold_15-snap.993-T1
Valid prediction for GlimmerHMM_glimmerT_36054-T1
Valid prediction for snap_scaffold_15-snap.977-T1
Valid prediction for GlimmerHMM_glimmerT_36032-T1
Valid prediction for snap_scaffold_15-snap.1005-T1
Valid prediction for GlimmerHMM_glimmerT_36038-T1
Valid prediction for snap_scaffold_15-snap.1006-T1
Valid prediction for snap_scaffold_15-snap.998-T1
Valid prediction for GlimmerHMM_glimmerT_36047-T1
Valid prediction for snap_scaffold_15-snap.995-T1
Valid prediction for Augustus_model.g24043.t1
Valid prediction for snap_scaffold_15-snap.979-T1
Valid prediction for CodingQuarry_transcript_17984-T1
Couldn't classify 9020, 9193
Sorry, prediction pasa_asmbl_15163.p1 fails validation.
(CTC)	 GA	9020-9193	GT	AGG
(GTT)	 AG	9822-9905	GT	CAG
(ATG)	 AG	10386-11159	CC	GAC
-recovered pasa_asmbl_15163.p1, terminal, 10386, 11159
-recovered pasa_asmbl_15163.p1, internal, 9822, 9905
Valid prediction for GlimmerHMM_glimmerT_36057-T1
Valid prediction for snap_scaffold_15-snap.994-T1
Valid prediction for GlimmerHMM_glimmerT_36046-T1
Valid prediction for Augustus_model.g24045.t1
Valid prediction for GlimmerHMM_glimmerT_36035-T1
Valid prediction for GlimmerHMM_glimmerT_36050-T1
Valid prediction for snap_scaffold_15-snap.975-T1
Valid prediction for snap_scaffold_15-snap.988-T1
Valid prediction for snap_scaffold_15-snap.1002-T1
Valid prediction for HiQ_model.g24034.t1
Valid prediction for GlimmerHMM_glimmerT_36052-T1
Valid prediction for Augustus_model.g24037.t1
Valid prediction for GlimmerHMM_glimmerT_36033-T1
Valid prediction for snap_scaffold_15-snap.989-T1
Valid prediction for snap_scaffold_15-snap.986-T1
Valid prediction for snap_scaffold_15-snap.996-T1
Valid prediction for GlimmerHMM_glimmerT_36043-T1
Valid prediction for snap_scaffold_15-snap.990-T1
Valid prediction for Augustus_model.g24036.t1
Valid prediction for GlimmerHMM_glimmerT_36039-T1
Valid prediction for GlimmerHMM_glimmerT_36041-T1
Valid prediction for Augustus_model.g24038.t1
Valid prediction for Augustus_model.g24035.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 GlimmerHMM_glimmerT_36042-T1
Valid prediction for GlimmerHMM_glimmerT_36055-T1
Valid prediction for snap_scaffold_15-snap.985-T1
Valid prediction for GlimmerHMM_glimmerT_36060-T1
Valid prediction for snap_scaffold_15-snap.980-T1
Valid prediction for GlimmerHMM_glimmerT_36045-T1
Valid prediction for GlimmerHMM_glimmerT_36056-T1
Valid prediction for snap_scaffold_15-snap.1003-T1
Valid prediction for Augustus_model.g24039.t1
Valid prediction for snap_scaffold_15-snap.1004-T1
Valid prediction for snap_scaffold_15-snap.973-T1
Valid prediction for GlimmerHMM_glimmerT_36034-T1
Valid prediction for HiQ_model.g24033.t1
Valid prediction for snap_scaffold_15-snap.999-T1
Valid prediction for Augustus_model.g24040.t1
Valid prediction for GlimmerHMM_glimmerT_36059-T1
Valid prediction for GlimmerHMM_glimmerT_36049-T1
Valid prediction for GlimmerHMM_glimmerT_36040-T1
Valid prediction for snap_scaffold_15-snap.978-T1
Valid prediction for GlimmerHMM_glimmerT_36044-T1
Valid prediction for CodingQuarry_transcript_17983-T1
Valid prediction for GlimmerHMM_glimmerT_36036-T1
Valid prediction for snap_scaffold_15-snap.991-T1
Valid prediction for snap_scaffold_15-snap.992-T1
Valid prediction for snap_scaffold_15-snap.1000-T1
Valid prediction for snap_scaffold_15-snap.982-T1
Valid prediction for GlimmerHMM_glimmerT_36037-T1
Valid prediction for snap_scaffold_15-snap.997-T1
Valid prediction for snap_scaffold_15-snap.987-T1
Valid prediction for snap_scaffold_15-snap.974-T1
Valid prediction for GlimmerHMM_glimmerT_36031-T1
Valid prediction for snap_scaffold_15-snap.984-T1
Valid prediction for snap_scaffold_15-snap.983-T1
Valid prediction for GlimmerHMM_glimmerT_36051-T1
Valid prediction for Augustus_model.g24042.t1
Valid prediction for snap_scaffold_15-snap.1007-T1
Valid prediction for GlimmerHMM_glimmerT_36053-T1
Valid prediction for GlimmerHMM_glimmerT_36048-T1
Valid prediction for Augustus_model.g24041.t1
Valid prediction for Augustus_model.g24044.t1
Valid prediction for pasa_asmbl_14151.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 25760, rend_intergenic: 24353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30834, rend_intergenic: 26367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35987, rend_intergenic: 34451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39605, rend_intergenic: 37732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62156, rend_intergenic: 58798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85101, rend_intergenic: 82104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86401, rend_intergenic: 85511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108271, rend_intergenic: 102113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120768, rend_intergenic: 109518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124027, rend_intergenic: 120817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134687, rend_intergenic: 129419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141555, rend_intergenic: 134957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144784, rend_intergenic: 141863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 148103
-exon list size: 255


building trellis

0.4    
0.8    
1.2    
1.6    
1.9    
2.3    
2.7    
3.1    
3.5    
3.9    
4.3    
4.7    
5.1    
5.4    
5.8    
6.2    
6.6    
7.0    
7.4    
7.8    
8.2    
8.6    
8.9    
9.3    
9.7    
10.1    
10.5    
10.9    
11.3    
11.7    
12.1    
12.5    
12.8    
13.2    
13.6    
14.0    
14.4    
14.8    
15.2    
15.6    
16.0    
16.3    
16.7    
17.1    
17.5    
17.9    
18.3    
18.7    
19.1    
19.5    
19.8    
20.2    
20.6    
21.0    
21.4    
21.8    
22.2    
22.6    
23.0    
23.3    
23.7    
24.1    
24.5    
24.9    
25.3    
25.7    
26.1    
26.5    
26.8    
27.2    
27.6    
28.0    
28.4    
28.8    
29.2    
29.6    
30.0    
30.4    
30.7    
31.1    
31.5    
31.9    
32.3    
32.7    
33.1    
33.5    
33.9    
34.2    
34.6    
35.0    
35.4    
35.8    
36.2    
36.6    
37.0    
37.4    
37.7    
38.1    
38.5    
38.9    
39.3    
39.7    
40.1    
40.5    
40.9    
41.2    
41.6    
42.0    
42.4    
42.8    
43.2    
43.6    
44.0    
44.4    
44.7    
45.1    
45.5    
45.9    
46.3    
46.7    
47.1    
47.5    
47.9    
48.2    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.8    
52.1    
52.5    
52.9    
53.3    
53.7    
54.1    
54.5    
54.9    
55.3    
55.6    
56.0    
56.4    
56.8    
57.2    
57.6    
58.0    
58.4    
58.8    
59.1    
59.5    
59.9    
60.3    
60.7    
61.1    
61.5    
61.9    
62.3    
62.6    
63.0    
63.4    
63.8    
64.2    
64.6    
65.0    
65.4    
65.8    
66.1    
66.5    
66.9    
67.3    
67.7    
68.1    
68.5    
68.9    
69.3    
69.6    
70.0    
70.4    
70.8    
71.2    
71.6    
72.0    
72.4    
72.8    
73.2    
73.5    
73.9    
74.3    
74.7    
75.1    
75.5    
75.9    
76.3    
76.7    
77.0    
77.4    
77.8    
78.2    
78.6    
79.0    
79.4    
79.8    
80.2    
80.5    
80.9    
81.3    
81.7    
82.1    
82.5    
82.9    
83.3    
83.7    
84.0    
84.4    
84.8    
85.2    
85.6    
86.0    
86.4    
86.8    
87.2    
87.5    
87.9    
88.3    
88.7    
89.1    
89.5    
89.9    
90.3    
90.7    
91.1    
91.4    
91.8    
92.2    
92.6    
93.0    
93.4    
93.8    
94.2    
94.6    
94.9    
95.3    
95.7    
96.1    
96.5    
96.9    
97.3    
97.7    
98.1    
98.4    
98.8    
99.2    
99.6    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 25760, rend_intergenic: 24353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30834, rend_intergenic: 26367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35987, rend_intergenic: 34451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39605, rend_intergenic: 37732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62156, rend_intergenic: 58798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85101, rend_intergenic: 82104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86401, rend_intergenic: 85511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108271, rend_intergenic: 102113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120768, rend_intergenic: 109518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124027, rend_intergenic: 120817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134687, rend_intergenic: 129419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141555, rend_intergenic: 134957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144784, rend_intergenic: 141863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support