-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_4346318-4561018

-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.946-T1
Valid prediction for GlimmerHMM_glimmerT_36017-T1
Valid prediction for snap_scaffold_15-snap.966-T1
Valid prediction for snap_scaffold_15-snap.935-T1
Valid prediction for Augustus_model.g24020.t1
Valid prediction for GlimmerHMM_glimmerT_36020-T1
Valid prediction for Augustus_model.g24026.t1
Valid prediction for snap_scaffold_15-snap.957-T1
Valid prediction for GlimmerHMM_glimmerT_36025-T1
Valid prediction for GlimmerHMM_glimmerT_36012-T1
Valid prediction for Augustus_model.g24025.t1
Valid prediction for CodingQuarry_transcript_17982-T1
Valid prediction for snap_scaffold_15-snap.954-T1
Valid prediction for HiQ_model.g24029.t1
Valid prediction for snap_scaffold_15-snap.963-T1
Valid prediction for snap_scaffold_15-snap.937-T1
Valid prediction for Augustus_model.g24021.t1
Valid prediction for snap_scaffold_15-snap.958-T1
Valid prediction for GlimmerHMM_glimmerT_36016-T1
Valid prediction for snap_scaffold_15-snap.960-T1
Valid prediction for snap_scaffold_15-snap.936-T1
Valid prediction for snap_scaffold_15-snap.938-T1
Valid prediction for pasa_asmbl_15155.p1
Valid prediction for snap_scaffold_15-snap.940-T1
Valid prediction for CodingQuarry_transcript_17979-T1
Valid prediction for snap_scaffold_15-snap.965-T1
Valid prediction for snap_scaffold_15-snap.961-T1
Valid prediction for GlimmerHMM_glimmerT_36009-T1
Valid prediction for HiQ_model.g24028.t1
Valid prediction for snap_scaffold_15-snap.967-T1
Valid prediction for Augustus_model.g24031.t1
Valid prediction for GlimmerHMM_glimmerT_36015-T1
Valid prediction for GlimmerHMM_glimmerT_36011-T1
Valid prediction for snap_scaffold_15-snap.949-T1
Valid prediction for snap_scaffold_15-snap.939-T1
Valid prediction for GlimmerHMM_glimmerT_36007-T1
Valid prediction for pasa_asmbl_15142.p1
Valid prediction for CodingQuarry_transcript_17980-T1
Valid prediction for snap_scaffold_15-snap.955-T1
Valid prediction for snap_scaffold_15-snap.944-T1
Valid prediction for Augustus_model.g24023.t1
Valid prediction for Augustus_model.g24030.t1
Valid prediction for snap_scaffold_15-snap.969-T1
Valid prediction for GlimmerHMM_glimmerT_36024-T1
Valid prediction for snap_scaffold_15-snap.945-T1
Valid prediction for pasa_asmbl_15149.p1
Valid prediction for snap_scaffold_15-snap.953-T1
Valid prediction for snap_scaffold_15-snap.932-T1
Valid prediction for GlimmerHMM_glimmerT_36022-T1
Valid prediction for snap_scaffold_15-snap.951-T1
Valid prediction for snap_scaffold_15-snap.943-T1
Valid prediction for CodingQuarry_transcript_17981-T1
Couldn't classify 165724, 165957
Couldn't classify 168448, 168579
Sorry, prediction pasa_asmbl_15154.p1 fails validation.
(TGT)	 TG	165724-165957	GT	TGG
(TTT)	 AG	167901-168011	GT	AGG
(CTC)	 AG	168129-168221	GT	AGG
(CTG)	 AG	168448-168579	TG	GGT
-recovered pasa_asmbl_15154.p1, internal, 167901, 168011
-recovered pasa_asmbl_15154.p1, internal, 168129, 168221
Valid prediction for snap_scaffold_15-snap.962-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.g24024.t1
Valid prediction for snap_scaffold_15-snap.952-T1
Valid prediction for GlimmerHMM_glimmerT_36030-T1
Valid prediction for snap_scaffold_15-snap.964-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_36027-T1
Couldn't classify 30399, 30701
Sorry, prediction pasa_asmbl_14150.p1 fails validation.
(ATG)	 TC	30399-30701	CG	ACC
Valid prediction for Augustus_model.g24016.t1
Valid prediction for GlimmerHMM_glimmerT_36023-T1
Valid prediction for Augustus_model.g24022.t1
Valid prediction for snap_scaffold_15-snap.956-T1
Valid prediction for GlimmerHMM_glimmerT_36008-T1
Valid prediction for snap_scaffold_15-snap.942-T1
Valid prediction for GlimmerHMM_glimmerT_36018-T1
Valid prediction for snap_scaffold_15-snap.934-T1
Valid prediction for snap_scaffold_15-snap.972-T1
Valid prediction for snap_scaffold_15-snap.959-T1
Valid prediction for snap_scaffold_15-snap.971-T1
Valid prediction for snap_scaffold_15-snap.947-T1
Valid prediction for snap_scaffold_15-snap.948-T1
Valid prediction for GlimmerHMM_glimmerT_36029-T1
Valid prediction for GlimmerHMM_glimmerT_36019-T1
Valid prediction for snap_scaffold_15-snap.968-T1
Valid prediction for GlimmerHMM_glimmerT_36014-T1
Valid prediction for GlimmerHMM_glimmerT_36026-T1
Valid prediction for GlimmerHMM_glimmerT_36010-T1
Valid prediction for Augustus_model.g24018.t1
Valid prediction for Augustus_model.g24017.t1
Valid prediction for pasa_asmbl_14146.p1
Valid prediction for HiQ_model.g24027.t1
Valid prediction for GlimmerHMM_glimmerT_36013-T1
Valid prediction for GlimmerHMM_glimmerT_36006-T1
Valid prediction for snap_scaffold_15-snap.970-T1
Valid prediction for Augustus_model.g24032.t1
Valid prediction for Augustus_model.g24019.t1
Valid prediction for GlimmerHMM_glimmerT_36028-T1
Valid prediction for GlimmerHMM_glimmerT_36004-T1
Valid prediction for snap_scaffold_15-snap.931-T1
Valid prediction for GlimmerHMM_glimmerT_36005-T1
Valid prediction for snap_scaffold_15-snap.933-T1
Valid prediction for snap_scaffold_15-snap.941-T1
Valid prediction for snap_scaffold_15-snap.950-T1
Valid prediction for GlimmerHMM_glimmerT_36021-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 120125, rend_intergenic: 120122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48105, rend_intergenic: 47352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73513, rend_intergenic: 65169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82323, rend_intergenic: 79363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92028, rend_intergenic: 89956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116173, rend_intergenic: 111837  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166563, rend_intergenic: 162839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172286, rend_intergenic: 166896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 214701
-exon list size: 292


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.1    
3.4    
3.7    
4.1    
4.4    
4.8    
5.1    
5.4    
5.8    
6.1    
6.5    
6.8    
7.1    
7.5    
7.8    
8.2    
8.5    
8.8    
9.2    
9.5    
9.9    
10.2    
10.5    
10.9    
11.2    
11.6    
11.9    
12.2    
12.6    
12.9    
13.3    
13.6    
13.9    
14.3    
14.6    
15.0    
15.3    
15.6    
16.0    
16.3    
16.7    
17.0    
17.3    
17.7    
18.0    
18.4    
18.7    
19.0    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.8    
22.1    
22.4    
22.8    
23.1    
23.5    
23.8    
24.1    
24.5    
24.8    
25.2    
25.5    
25.9    
26.2    
26.5    
26.9    
27.2    
27.6    
27.9    
28.2    
28.6    
28.9    
29.3    
29.6    
29.9    
30.3    
30.6    
31.0    
31.3    
31.6    
32.0    
32.3    
32.7    
33.0    
33.3    
33.7    
34.0    
34.4    
34.7    
35.0    
35.4    
35.7    
36.1    
36.4    
36.7    
37.1    
37.4    
37.8    
38.1    
38.4    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.2    
41.5    
41.8    
42.2    
42.5    
42.9    
43.2    
43.5    
43.9    
44.2    
44.6    
44.9    
45.2    
45.6    
45.9    
46.3    
46.6    
46.9    
47.3    
47.6    
48.0    
48.3    
48.6    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.4    
51.7    
52.0    
52.4    
52.7    
53.1    
53.4    
53.7    
54.1    
54.4    
54.8    
55.1    
55.4    
55.8    
56.1    
56.5    
56.8    
57.1    
57.5    
57.8    
58.2    
58.5    
58.8    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.6    
61.9    
62.2    
62.6    
62.9    
63.3    
63.6    
63.9    
64.3    
64.6    
65.0    
65.3    
65.6    
66.0    
66.3    
66.7    
67.0    
67.3    
67.7    
68.0    
68.4    
68.7    
69.0    
69.4    
69.7    
70.1    
70.4    
70.7    
71.1    
71.4    
71.8    
72.1    
72.4    
72.8    
73.1    
73.5    
73.8    
74.1    
74.5    
74.8    
75.2    
75.5    
75.9    
76.2    
76.5    
76.9    
77.2    
77.6    
77.9    
78.2    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
81.0    
81.3    
81.6    
82.0    
82.3    
82.7    
83.0    
83.3    
83.7    
84.0    
84.4    
84.7    
85.0    
85.4    
85.7    
86.1    
86.4    
86.7    
87.1    
87.4    
87.8    
88.1    
88.4    
88.8    
89.1    
89.5    
89.8    
90.1    
90.5    
90.8    
91.2    
91.5    
91.8    
92.2    
92.5    
92.9    
93.2    
93.5    
93.9    
94.2    
94.6    
94.9    
95.2    
95.6    
95.9    
96.3    
96.6    
96.9    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 35 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 120125, rend_intergenic: 120122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48105, rend_intergenic: 47352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73513, rend_intergenic: 65169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82323, rend_intergenic: 79363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92028, rend_intergenic: 89956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116173, rend_intergenic: 111837  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166563, rend_intergenic: 162839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172286, rend_intergenic: 166896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 27 predictions persist after filtering for low support