-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_4274459-4442734

-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_21-snap.827-T1
Valid prediction for snap_scaffold_21-snap.849-T1
Valid prediction for snap_scaffold_21-snap.842-T1
Valid prediction for GlimmerHMM_glimmerT_47514-T1
Valid prediction for snap_scaffold_21-snap.853-T1
Valid prediction for snap_scaffold_21-snap.844-T1
Valid prediction for snap_scaffold_21-snap.822-T1
Valid prediction for GlimmerHMM_glimmerT_47507-T1
Valid prediction for GlimmerHMM_glimmerT_47497-T1
Valid prediction for Augustus_model.g31667.t1
Valid prediction for snap_scaffold_21-snap.858-T1
Valid prediction for Augustus_model.g31672.t1
Valid prediction for snap_scaffold_21-snap.818-T1
Valid prediction for snap_scaffold_21-snap.825-T1
Valid prediction for Augustus_model.g31662.t1
Valid prediction for snap_scaffold_21-snap.859-T1
Valid prediction for snap_scaffold_21-snap.831-T1
Valid prediction for GlimmerHMM_glimmerT_47509-T1
Valid prediction for snap_scaffold_21-snap.852-T1
Valid prediction for GlimmerHMM_glimmerT_47515-T1
Valid prediction for snap_scaffold_21-snap.837-T1
Valid prediction for Augustus_model.g31670.t1
Valid prediction for GlimmerHMM_glimmerT_47499-T1
Valid prediction for Augustus_model.g31677.t1
Valid prediction for snap_scaffold_21-snap.824-T1
Valid prediction for snap_scaffold_21-snap.819-T1
Valid prediction for snap_scaffold_21-snap.843-T1
Valid prediction for snap_scaffold_21-snap.823-T1
Valid prediction for snap_scaffold_21-snap.848-T1
Valid prediction for GlimmerHMM_glimmerT_47520-T1
Valid prediction for GlimmerHMM_glimmerT_47518-T1
Valid prediction for snap_scaffold_21-snap.854-T1
Valid prediction for Augustus_model.g31663.t1
Valid prediction for Augustus_model.g31665.t1
Valid prediction for snap_scaffold_21-snap.856-T1
Valid prediction for GlimmerHMM_glimmerT_47500-T1
Valid prediction for snap_scaffold_21-snap.833-T1
Valid prediction for snap_scaffold_21-snap.846-T1
Valid prediction for snap_scaffold_21-snap.845-T1
Valid prediction for snap_scaffold_21-snap.834-T1
Valid prediction for GlimmerHMM_glimmerT_47517-T1
Valid prediction for GlimmerHMM_glimmerT_47508-T1
Valid prediction for GlimmerHMM_glimmerT_47506-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.g31673.t1
Valid prediction for Augustus_model.g31666.t1
Valid prediction for snap_scaffold_21-snap.855-T1
Valid prediction for snap_scaffold_21-snap.841-T1
Valid prediction for GlimmerHMM_glimmerT_47510-T1
Valid prediction for GlimmerHMM_glimmerT_47498-T1
Valid prediction for snap_scaffold_21-snap.860-T1
Valid prediction for snap_scaffold_21-snap.847-T1
Couldn't classify 6378, 6541
Sorry, prediction GlimmerHMM_glimmerT_47519-T1 fails validation.
(ATN)	 TC	6378-6541	GT	ATG
(AGA)	 AG	9229-9328	GT	TGG
(GTC)	 AG	9596-9742	AG	GAA
-recovered GlimmerHMM_glimmerT_47519-T1, terminal, 9596, 9742
-recovered GlimmerHMM_glimmerT_47519-T1, internal, 9229, 9328
Valid prediction for snap_scaffold_21-snap.836-T1
Valid prediction for GlimmerHMM_glimmerT_47502-T1
Valid prediction for Augustus_model.g31668.t1
Valid prediction for snap_scaffold_21-snap.850-T1
Valid prediction for snap_scaffold_21-snap.826-T1
Valid prediction for GlimmerHMM_glimmerT_47503-T1
Valid prediction for snap_scaffold_21-snap.838-T1
Valid prediction for snap_scaffold_21-snap.857-T1
Valid prediction for snap_scaffold_21-snap.828-T1
Valid prediction for Augustus_model.g31671.t1
Valid prediction for snap_scaffold_21-snap.821-T1
Valid prediction for snap_scaffold_21-snap.820-T1
Valid prediction for Augustus_model.g31669.t1
Valid prediction for snap_scaffold_21-snap.839-T1
Valid prediction for GlimmerHMM_glimmerT_47513-T1
Valid prediction for Augustus_model.g31675.t1
Valid prediction for GlimmerHMM_glimmerT_47505-T1
Valid prediction for snap_scaffold_21-snap.851-T1
Valid prediction for snap_scaffold_21-snap.829-T1
Valid prediction for snap_scaffold_21-snap.830-T1
Valid prediction for Augustus_model.g31674.t1
Valid prediction for Augustus_model.g31664.t1
Valid prediction for Augustus_model.g31676.t1
Valid prediction for snap_scaffold_21-snap.832-T1
Valid prediction for GlimmerHMM_glimmerT_47512-T1
Valid prediction for GlimmerHMM_glimmerT_47511-T1
Valid prediction for snap_scaffold_21-snap.835-T1
Valid prediction for GlimmerHMM_glimmerT_47516-T1
Valid prediction for GlimmerHMM_glimmerT_47501-T1
Valid prediction for GlimmerHMM_glimmerT_47504-T1
Valid prediction for snap_scaffold_21-snap.840-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7076, rend_intergenic: 4409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30202, rend_intergenic: 28937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32126, rend_intergenic: 30238  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36334, rend_intergenic: 32465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65941, rend_intergenic: 61443  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118224, rend_intergenic: 114210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143651, rend_intergenic: 136100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149975, rend_intergenic: 147421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158203, rend_intergenic: 150907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166319, rend_intergenic: 158569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 168276
-exon list size: 276


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.2    
2.5    
2.9    
3.2    
3.6    
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4.3    
4.7    
5.0    
5.4    
5.8    
6.1    
6.5    
6.8    
7.2    
7.6    
7.9    
8.3    
8.6    
9.0    
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9.7    
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10.4    
10.8    
11.2    
11.5    
11.9    
12.2    
12.6    
12.9    
13.3    
13.7    
14.0    
14.4    
14.7    
15.1    
15.5    
15.8    
16.2    
16.5    
16.9    
17.3    
17.6    
18.0    
18.3    
18.7    
19.1    
19.4    
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20.1    
20.5    
20.9    
21.2    
21.6    
21.9    
22.3    
22.7    
23.0    
23.4    
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25.9    
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34.5    
34.9    
35.3    
35.6    
36.0    
36.3    
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37.4    
37.8    
38.1    
38.5    
38.8    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.4    
41.7    
42.1    
42.4    
42.8    
43.2    
43.5    
43.9    
44.2    
44.6    
45.0    
45.3    
45.7    
46.0    
46.4    
46.8    
47.1    
47.5    
47.8    
48.2    
48.6    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.4    
51.8    
52.2    
52.5    
52.9    
53.2    
53.6    
54.0    
54.3    
54.7    
55.0    
55.4    
55.8    
56.1    
56.5    
56.8    
57.2    
57.6    
57.9    
58.3    
58.6    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.2    
61.5    
61.9    
62.2    
62.6    
62.9    
63.3    
63.7    
64.0    
64.4    
64.7    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.3    
68.7    
69.1    
69.4    
69.8    
70.1    
70.5    
70.9    
71.2    
71.6    
71.9    
72.3    
72.7    
73.0    
73.4    
73.7    
74.1    
74.5    
74.8    
75.2    
75.5    
75.9    
76.3    
76.6    
77.0    
77.3    
77.7    
78.1    
78.4    
78.8    
79.1    
79.5    
79.9    
80.2    
80.6    
80.9    
81.3    
81.7    
82.0    
82.4    
82.7    
83.1    
83.5    
83.8    
84.2    
84.5    
84.9    
85.3    
85.6    
86.0    
86.3    
86.7    
87.1    
87.4    
87.8    
88.1    
88.5    
88.8    
89.2    
89.6    
89.9    
90.3    
90.6    
91.0    
91.4    
91.7    
92.1    
92.4    
92.8    
93.2    
93.5    
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94.2    
94.6    
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95.3    
95.7    
96.0    
96.4    
96.8    
97.1    
97.5    
97.8    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 7076, rend_intergenic: 4409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30202, rend_intergenic: 28937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32126, rend_intergenic: 30238  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36334, rend_intergenic: 32465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65941, rend_intergenic: 61443  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118224, rend_intergenic: 114210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143651, rend_intergenic: 136100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149975, rend_intergenic: 147421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158203, rend_intergenic: 150907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166319, rend_intergenic: 158569  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