-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_4158133-4348073

-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.888-T1
Valid prediction for snap_scaffold_15-snap.913-T1
Valid prediction for snap_scaffold_15-snap.928-T1
Valid prediction for snap_scaffold_15-snap.923-T1
Valid prediction for snap_scaffold_15-snap.904-T1
Valid prediction for GlimmerHMM_glimmerT_35984-T1
Valid prediction for snap_scaffold_15-snap.897-T1
Valid prediction for HiQ_model.g23994.t1
Valid prediction for GlimmerHMM_glimmerT_35982-T1
Valid prediction for CodingQuarry_transcript_17976-T1
Valid prediction for Augustus_model.g23995.t1
Valid prediction for snap_scaffold_15-snap.911-T1
Valid prediction for snap_scaffold_15-snap.887-T1
Valid prediction for snap_scaffold_15-snap.889-T1
Valid prediction for snap_scaffold_15-snap.903-T1
Valid prediction for snap_scaffold_15-snap.891-T1
Valid prediction for GlimmerHMM_glimmerT_35983-T1
Valid prediction for snap_scaffold_15-snap.909-T1
Valid prediction for GlimmerHMM_glimmerT_35990-T1
Valid prediction for pasa_asmbl_15136.p1
Valid prediction for CodingQuarry_transcript_17975-T1
Valid prediction for GlimmerHMM_glimmerT_35986-T1
Valid prediction for snap_scaffold_15-snap.916-T1
Valid prediction for snap_scaffold_15-snap.919-T1
Valid prediction for snap_scaffold_15-snap.920-T1
Valid prediction for snap_scaffold_15-snap.892-T1
Valid prediction for Augustus_model.g23991.t1
Couldn't classify 74467, 74745
Sorry, prediction pasa_asmbl_15130.p1 fails validation.
(AAG)	 GA	74467-74745	GT	AGG
(CAA)	 AG	74985-75074	TG	GAT
-recovered pasa_asmbl_15130.p1, terminal, 74985, 75074
Valid prediction for snap_scaffold_15-snap.901-T1
Valid prediction for HiQ_model.g24000.t1
Valid prediction for Augustus_model.g24012.t1
Valid prediction for GlimmerHMM_glimmerT_35989-T1
Valid prediction for snap_scaffold_15-snap.910-T1
Valid prediction for snap_scaffold_15-snap.924-T1
Valid prediction for HiQ_model.g23999.t1
Valid prediction for GlimmerHMM_glimmerT_35999-T1
Valid prediction for snap_scaffold_15-snap.896-T1
Valid prediction for GlimmerHMM_glimmerT_35976-T1
Valid prediction for snap_scaffold_15-snap.895-T1
Valid prediction for pasa_asmbl_15128.p1
Valid prediction for CodingQuarry_transcript_17974-T1
Valid prediction for snap_scaffold_15-snap.899-T1
Valid prediction for snap_scaffold_15-snap.908-T1
Valid prediction for snap_scaffold_15-snap.927-T1
Valid prediction for GlimmerHMM_glimmerT_35980-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_35988-T1
Valid prediction for snap_scaffold_15-snap.894-T1
Valid prediction for snap_scaffold_15-snap.914-T1
Valid prediction for GlimmerHMM_glimmerT_36000-T1
Valid prediction for GlimmerHMM_glimmerT_35987-T1
Valid prediction for snap_scaffold_15-snap.900-T1
Valid prediction for HiQ_model.g23992.t1
Valid prediction for snap_scaffold_15-snap.925-T1
Valid prediction for Augustus_model.g24003.t1
Valid prediction for snap_scaffold_15-snap.898-T1
Valid prediction for GlimmerHMM_glimmerT_35991-T1
Valid prediction for Augustus_model.g23996.t1
Valid prediction for GlimmerHMM_glimmerT_35977-T1
Valid prediction for Augustus_model.g24015.t1
Valid prediction for snap_scaffold_15-snap.921-T1
Valid prediction for Augustus_model.g23997.t1
Valid prediction for snap_scaffold_15-snap.890-T1
Valid prediction for Augustus_model.g23998.t1
Valid prediction for GlimmerHMM_glimmerT_35998-T1
Valid prediction for GlimmerHMM_glimmerT_35979-T1
Valid prediction for GlimmerHMM_glimmerT_35996-T1
Valid prediction for Augustus_model.g24008.t1
Valid prediction for snap_scaffold_15-snap.893-T1
Valid prediction for pasa_asmbl_14138.p1
Valid prediction for GlimmerHMM_glimmerT_35981-T1
Valid prediction for snap_scaffold_15-snap.902-T1
Valid prediction for CodingQuarry_transcript_17977-T1
Valid prediction for GlimmerHMM_glimmerT_35978-T1
Valid prediction for CodingQuarry_transcript_17972-T1
Valid prediction for GlimmerHMM_glimmerT_35997-T1
Valid prediction for snap_scaffold_15-snap.915-T1
Valid prediction for GlimmerHMM_glimmerT_35993-T1
Valid prediction for snap_scaffold_15-snap.905-T1
Valid prediction for Augustus_model.g24005.t1
Valid prediction for Augustus_model.g24010.t1
Valid prediction for snap_scaffold_15-snap.917-T1
Valid prediction for snap_scaffold_15-snap.929-T1
Valid prediction for snap_scaffold_15-snap.907-T1
Valid prediction for Augustus_model.g23993.t1
Valid prediction for Augustus_model.g24011.t1
Valid prediction for snap_scaffold_15-snap.926-T1
Valid prediction for Augustus_model.g24007.t1
Valid prediction for GlimmerHMM_glimmerT_36003-T1
Valid prediction for GlimmerHMM_glimmerT_35985-T1
Valid prediction for GlimmerHMM_glimmerT_36002-T1
Valid prediction for Augustus_model.g24014.t1
Valid prediction for snap_scaffold_15-snap.922-T1
Valid prediction for GlimmerHMM_glimmerT_35994-T1
Valid prediction for Augustus_model.g24004.t1
Valid prediction for Augustus_model.g24006.t1
Valid prediction for Augustus_model.g24002.t1
Valid prediction for snap_scaffold_15-snap.930-T1
Valid prediction for GlimmerHMM_glimmerT_36001-T1
Valid prediction for snap_scaffold_15-snap.912-T1
Valid prediction for GlimmerHMM_glimmerT_35992-T1
Valid prediction for Augustus_model.g24009.t1
Valid prediction for Augustus_model.g24013.t1
Valid prediction for snap_scaffold_15-snap.918-T1
Valid prediction for snap_scaffold_15-snap.906-T1
Couldn't classify 109965, 110231
Sorry, prediction pasa_asmbl_14141.p1 fails validation.
(GTA)	 AG	109965-110231	GT	CGG
(TTT)	 AG	110632-110733	GT	AAG
(AGG)	 AG	110818-110913	GT	AGG
(GGT)	 AG	111043-111178	GT	AAG
(CGG)	 AG	111296-111363	GT	GAG
(TGG)	 AG	111483-111580	GT	AAG
(AAT)	 AG	111740-111794	CG	AAC
-recovered pasa_asmbl_14141.p1, terminal, 111740, 111794
-recovered pasa_asmbl_14141.p1, internal, 109965, 110231
-recovered pasa_asmbl_14141.p1, internal, 110632, 110733
-recovered pasa_asmbl_14141.p1, internal, 110818, 110913
-recovered pasa_asmbl_14141.p1, internal, 111043, 111178
-recovered pasa_asmbl_14141.p1, internal, 111296, 111363
-recovered pasa_asmbl_14141.p1, internal, 111483, 111580
Valid prediction for HiQ_model.g24001.t1
Valid prediction for GlimmerHMM_glimmerT_35995-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14377, rend_intergenic: 10854  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19263, rend_intergenic: 17180  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24098, rend_intergenic: 19796  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47004, rend_intergenic: 39372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56164, rend_intergenic: 51289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109765, rend_intergenic: 107527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116135, rend_intergenic: 110199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135808, rend_intergenic: 125464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145546, rend_intergenic: 137173  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158743, rend_intergenic: 155207  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173675, rend_intergenic: 167132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186282, rend_intergenic: 174755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 189941
-exon list size: 370


building trellis

0.3    
0.5    
0.8    
1.1    
1.3    
1.6    
1.9    
2.2    
2.4    
2.7    
3.0    
3.2    
3.5    
3.8    
4.0    
4.3    
4.6    
4.8    
5.1    
5.4    
5.6    
5.9    
6.2    
6.5    
6.7    
7.0    
7.3    
7.5    
7.8    
8.1    
8.3    
8.6    
8.9    
9.1    
9.4    
9.7    
9.9    
10.2    
10.5    
10.8    
11.0    
11.3    
11.6    
11.8    
12.1    
12.4    
12.6    
12.9    
13.2    
13.4    
13.7    
14.0    
14.2    
14.5    
14.8    
15.1    
15.3    
15.6    
15.9    
16.1    
16.4    
16.7    
16.9    
17.2    
17.5    
17.7    
18.0    
18.3    
18.5    
18.8    
19.1    
19.4    
19.6    
19.9    
20.2    
20.4    
20.7    
21.0    
21.2    
21.5    
21.8    
22.0    
22.3    
22.6    
22.8    
23.1    
23.4    
23.7    
23.9    
24.2    
24.5    
24.7    
25.0    
25.3    
25.5    
25.8    
26.1    
26.3    
26.6    
26.9    
27.2    
27.4    
27.7    
28.0    
28.2    
28.5    
28.8    
29.0    
29.3    
29.6    
29.8    
30.1    
30.4    
30.6    
30.9    
31.2    
31.5    
31.7    
32.0    
32.3    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.7    
34.9    
35.2    
35.5    
35.8    
36.0    
36.3    
36.6    
36.8    
37.1    
37.4    
37.6    
37.9    
38.2    
38.4    
38.7    
39.0    
39.2    
39.5    
39.8    
40.1    
40.3    
40.6    
40.9    
41.1    
41.4    
41.7    
41.9    
42.2    
42.5    
42.7    
43.0    
43.3    
43.5    
43.8    
44.1    
44.4    
44.6    
44.9    
45.2    
45.4    
45.7    
46.0    
46.2    
46.5    
46.8    
47.0    
47.3    
47.6    
47.8    
48.1    
48.4    
48.7    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.3    
51.6    
51.9    
52.2    
52.4    
52.7    
53.0    
53.2    
53.5    
53.8    
54.0    
54.3    
54.6    
54.8    
55.1    
55.4    
55.6    
55.9    
56.2    
56.5    
56.7    
57.0    
57.3    
57.5    
57.8    
58.1    
58.3    
58.6    
58.9    
59.1    
59.4    
59.7    
59.9    
60.2    
60.5    
60.8    
61.0    
61.3    
61.6    
61.8    
62.1    
62.4    
62.6    
62.9    
63.2    
63.4    
63.7    
64.0    
64.2    
64.5    
64.8    
65.1    
65.3    
65.6    
65.9    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.7    
68.0    
68.3    
68.5    
68.8    
69.1    
69.4    
69.6    
69.9    
70.2    
70.4    
70.7    
71.0    
71.2    
71.5    
71.8    
72.0    
72.3    
72.6    
72.8    
73.1    
73.4    
73.7    
73.9    
74.2    
74.5    
74.7    
75.0    
75.3    
75.5    
75.8    
76.1    
76.3    
76.6    
76.9    
77.2    
77.4    
77.7    
78.0    
78.2    
78.5    
78.8    
79.0    
79.3    
79.6    
79.8    
80.1    
80.4    
80.6    
80.9    
81.2    
81.5    
81.7    
82.0    
82.3    
82.5    
82.8    
83.1    
83.3    
83.6    
83.9    
84.1    
84.4    
84.7    
84.9    
85.2    
85.5    
85.8    
86.0    
86.3    
86.6    
86.8    
87.1    
87.4    
87.6    
87.9    
88.2    
88.4    
88.7    
89.0    
89.2    
89.5    
89.8    
90.1    
90.3    
90.6    
90.9    
91.1    
91.4    
91.7    
91.9    
92.2    
92.5    
92.7    
93.0    
93.3    
93.5    
93.8    
94.1    
94.4    
94.6    
94.9    
95.2    
95.4    
95.7    
96.0    
96.2    
96.5    
96.8    
97.0    
97.3    
97.6    
97.8    
98.1    
98.4    
98.7    
98.9    
99.2    
99.5    
99.7    
-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 14377, rend_intergenic: 10854  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19263, rend_intergenic: 17180  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24098, rend_intergenic: 19796  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47004, rend_intergenic: 39372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56164, rend_intergenic: 51289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109765, rend_intergenic: 107527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116135, rend_intergenic: 110199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135808, rend_intergenic: 125464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145546, rend_intergenic: 137173  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158743, rend_intergenic: 155207  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173675, rend_intergenic: 167132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186282, rend_intergenic: 174755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support