-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_1-183633

-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 Augustus_model.g30053.t1
Valid prediction for Augustus_model.g30054.t1
Valid prediction for snap_scaffold_20-snap.12-T1
Valid prediction for Augustus_model.g30048.t1
Valid prediction for GlimmerHMM_glimmerT_45286-T1
Valid prediction for snap_scaffold_20-snap.11-T1
Valid prediction for Augustus_model.g30043.t1
Valid prediction for snap_scaffold_20-snap.15-T1
Valid prediction for GlimmerHMM_glimmerT_45285-T1
Valid prediction for snap_scaffold_20-snap.18-T1
Sorry, intron length (3) is less than minimum required (10)
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g30041.t1
Valid prediction for snap_scaffold_20-snap.9-T1
Valid prediction for CodingQuarry_transcript_30370-T1
Valid prediction for snap_scaffold_20-snap.23-T1
Valid prediction for snap_scaffold_20-snap.30-T1
Valid prediction for GlimmerHMM_glimmerT_45289-T1
Valid prediction for GlimmerHMM_glimmerT_45287-T1
Valid prediction for Augustus_model.g30051.t1
Valid prediction for snap_scaffold_20-snap.37-T1
Valid prediction for GlimmerHMM_glimmerT_45284-T1
Valid prediction for GlimmerHMM_glimmerT_45294-T1
Valid prediction for GlimmerHMM_glimmerT_45281-T1
Valid prediction for snap_scaffold_20-snap.34-T1
Valid prediction for snap_scaffold_20-snap.8-T1
Valid prediction for Augustus_model.g30045.t1
Valid prediction for Augustus_model.g30046.t1
Valid prediction for snap_scaffold_20-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_45291-T1
Valid prediction for Augustus_model.g30050.t1
Valid prediction for GlimmerHMM_glimmerT_45296-T1
Valid prediction for GlimmerHMM_glimmerT_45282-T1
Valid prediction for snap_scaffold_20-snap.17-T1
Valid prediction for Augustus_model.g30044.t1
Valid prediction for Augustus_model.g30039.t1
Valid prediction for snap_scaffold_20-snap.21-T1
Valid prediction for Augustus_model.g30052.t1
Valid prediction for snap_scaffold_20-snap.27-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_20-snap.6-T1
Valid prediction for Augustus_model.g30047.t1
Valid prediction for GlimmerHMM_glimmerT_45293-T1
Valid prediction for snap_scaffold_20-snap.24-T1
Valid prediction for snap_scaffold_20-snap.10-T1
Valid prediction for snap_scaffold_20-snap.28-T1
Valid prediction for snap_scaffold_20-snap.7-T1
Valid prediction for snap_scaffold_20-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_45290-T1
Valid prediction for snap_scaffold_20-snap.20-T1
Valid prediction for GlimmerHMM_glimmerT_45283-T1
Valid prediction for Augustus_model.g30038.t1
Valid prediction for Augustus_model.g30040.t1
Valid prediction for snap_scaffold_20-snap.31-T1
Valid prediction for snap_scaffold_20-snap.22-T1
Couldn't classify 157777, 157956
Sorry, prediction pasa_asmbl_26224.p1 fails validation.
(GGA)	 CA	157777-157956	GT	CGG
(TTC)	 AG	158385-158531	GT	ACG
(ACT)	 AG	158820-158936	GT	GGG
(GTG)	 AG	160871-161167	AA	AGA
-recovered pasa_asmbl_26224.p1, terminal, 160871, 161167
-recovered pasa_asmbl_26224.p1, internal, 158385, 158531
-recovered pasa_asmbl_26224.p1, internal, 158820, 158936
Valid prediction for snap_scaffold_20-snap.14-T1
Valid prediction for snap_scaffold_20-snap.1-T1
Couldn't classify 97860, 97883
Sorry, prediction pasa_asmbl_26327.p1 fails validation.
(ATC)	 AC	97860-97883	GT	CTG
(GTG)	 AG	97982-98112	GT	CCG
(GCG)	 AG	98781-98928	GT	AGG
(GTC)	 AG	99042-99122	GT	GGG
(CCT)	 AG	99865-99934	GT	AGG
(GCG)	 AG	100077-100198	CG	AGC
-recovered pasa_asmbl_26327.p1, terminal, 100077, 100198
-recovered pasa_asmbl_26327.p1, internal, 97982, 98112
-recovered pasa_asmbl_26327.p1, internal, 98781, 98928
-recovered pasa_asmbl_26327.p1, internal, 99042, 99122
-recovered pasa_asmbl_26327.p1, internal, 99865, 99934
Valid prediction for snap_scaffold_20-snap.25-T1
Valid prediction for pasa_asmbl_25457.p1
Valid prediction for GlimmerHMM_glimmerT_45295-T1
Valid prediction for GlimmerHMM_glimmerT_45280-T1
Valid prediction for snap_scaffold_20-snap.32-T1
Valid prediction for Augustus_model.g30055.t1
Valid prediction for snap_scaffold_20-snap.29-T1
Valid prediction for GlimmerHMM_glimmerT_45297-T1
Valid prediction for snap_scaffold_20-snap.5-T1
Couldn't classify 72247, 72792
Sorry, prediction pasa_asmbl_25460.p1 fails validation.
(ACA)	 CT	72247-72792	GT	AGG
(AGC)	 AG	74177-74560	CG	AGC
-recovered pasa_asmbl_25460.p1, terminal, 74177, 74560
Valid prediction for snap_scaffold_20-snap.16-T1
Valid prediction for CodingQuarry_transcript_30369-T1
Valid prediction for Augustus_model.g30042.t1
Valid prediction for snap_scaffold_20-snap.35-T1
Valid prediction for snap_scaffold_20-snap.26-T1
Valid prediction for snap_scaffold_20-snap.4-T1
Valid prediction for snap_scaffold_20-snap.36-T1
Valid prediction for snap_scaffold_20-snap.19-T1
Valid prediction for snap_scaffold_20-snap.33-T1
Valid prediction for GlimmerHMM_glimmerT_45288-T1
Valid prediction for snap_scaffold_20-snap.13-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_45292-T1
Valid prediction for Augustus_model.g30049.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 36635, rend_intergenic: 5109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53402, rend_intergenic: 39815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67304, rend_intergenic: 55833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77219, rend_intergenic: 69035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93298, rend_intergenic: 82062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97290, rend_intergenic: 94325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115734, rend_intergenic: 98300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118687, rend_intergenic: 116328  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119841, rend_intergenic: 118773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120592, rend_intergenic: 120369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134107, rend_intergenic: 123579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141445, rend_intergenic: 135726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154137, rend_intergenic: 141582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167949, rend_intergenic: 155682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172545, rend_intergenic: 169297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180371, rend_intergenic: 172908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182368, rend_intergenic: 180376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 183633
-exon list size: 448


building trellis

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0.9    
1.1    
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1.6    
1.8    
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2.9    
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3.6    
3.8    
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4.9    
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5.6    
5.8    
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6.9    
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7.6    
7.8    
8.0    
8.2    
8.4    
8.7    
8.9    
9.1    
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10.9    
11.1    
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11.6    
11.8    
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13.8    
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14.9    
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15.6    
15.8    
16.0    
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16.9    
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17.6    
17.8    
18.0    
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18.9    
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19.8    
20.0    
20.2    
20.4    
20.7    
20.9    
21.1    
21.3    
21.6    
21.8    
22.0    
22.2    
22.4    
22.7    
22.9    
23.1    
23.3    
23.6    
23.8    
24.0    
24.2    
24.4    
24.7    
24.9    
25.1    
25.3    
25.6    
25.8    
26.0    
26.2    
26.4    
26.7    
26.9    
27.1    
27.3    
27.6    
27.8    
28.0    
28.2    
28.4    
28.7    
28.9    
29.1    
29.3    
29.6    
29.8    
30.0    
30.2    
30.4    
30.7    
30.9    
31.1    
31.3    
31.6    
31.8    
32.0    
32.2    
32.4    
32.7    
32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.2    
34.4    
34.7    
34.9    
35.1    
35.3    
35.6    
35.8    
36.0    
36.2    
36.4    
36.7    
36.9    
37.1    
37.3    
37.6    
37.8    
38.0    
38.2    
38.4    
38.7    
38.9    
39.1    
39.3    
39.6    
39.8    
40.0    
40.2    
40.4    
40.7    
40.9    
41.1    
41.3    
41.6    
41.8    
42.0    
42.2    
42.4    
42.7    
42.9    
43.1    
43.3    
43.6    
43.8    
44.0    
44.2    
44.4    
44.7    
44.9    
45.1    
45.3    
45.6    
45.8    
46.0    
46.2    
46.4    
46.7    
46.9    
47.1    
47.3    
47.6    
47.8    
48.0    
48.2    
48.4    
48.7    
48.9    
49.1    
49.3    
49.6    
49.8    
50.0    
50.2    
50.4    
50.7    
50.9    
51.1    
51.3    
51.6    
51.8    
52.0    
52.2    
52.4    
52.7    
52.9    
53.1    
53.3    
53.6    
53.8    
54.0    
54.2    
54.4    
54.7    
54.9    
55.1    
55.3    
55.6    
55.8    
56.0    
56.2    
56.4    
56.7    
56.9    
57.1    
57.3    
57.6    
57.8    
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58.2    
58.4    
58.7    
58.9    
59.1    
59.3    
59.6    
59.8    
60.0    
60.2    
60.4    
60.7    
60.9    
61.1    
61.3    
61.6    
61.8    
62.0    
62.2    
62.4    
62.7    
62.9    
63.1    
63.3    
63.6    
63.8    
64.0    
64.2    
64.4    
64.7    
64.9    
65.1    
65.3    
65.6    
65.8    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
67.3    
67.6    
67.8    
68.0    
68.2    
68.4    
68.7    
68.9    
69.1    
69.3    
69.6    
69.8    
70.0    
70.2    
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70.7    
70.9    
71.1    
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71.6    
71.8    
72.0    
72.2    
72.4    
72.7    
72.9    
73.1    
73.3    
73.6    
73.8    
74.0    
74.2    
74.4    
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74.9    
75.1    
75.3    
75.6    
75.8    
76.0    
76.2    
76.4    
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76.9    
77.1    
77.3    
77.6    
77.8    
78.0    
78.2    
78.4    
78.7    
78.9    
79.1    
79.3    
79.6    
79.8    
80.0    
80.2    
80.4    
80.7    
80.9    
81.1    
81.3    
81.6    
81.8    
82.0    
82.2    
82.4    
82.7    
82.9    
83.1    
83.3    
83.6    
83.8    
84.0    
84.2    
84.4    
84.7    
84.9    
85.1    
85.3    
85.6    
85.8    
86.0    
86.2    
86.4    
86.7    
86.9    
87.1    
87.3    
87.6    
87.8    
88.0    
88.2    
88.4    
88.7    
88.9    
89.1    
89.3    
89.6    
89.8    
90.0    
90.2    
90.4    
90.7    
90.9    
91.1    
91.3    
91.6    
91.8    
92.0    
92.2    
92.4    
92.7    
92.9    
93.1    
93.3    
93.6    
93.8    
94.0    
94.2    
94.4    
94.7    
94.9    
95.1    
95.3    
95.6    
95.8    
96.0    
96.2    
96.4    
96.7    
96.9    
97.1    
97.3    
97.6    
97.8    
98.0    
98.2    
98.4    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 21 predictions from path traversal
Error with prediction: snap lend_intergenic: 36635, rend_intergenic: 5109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53402, rend_intergenic: 39815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67304, rend_intergenic: 55833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77219, rend_intergenic: 69035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93298, rend_intergenic: 82062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97290, rend_intergenic: 94325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115734, rend_intergenic: 98300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118687, rend_intergenic: 116328  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119841, rend_intergenic: 118773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120592, rend_intergenic: 120369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134107, rend_intergenic: 123579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141445, rend_intergenic: 135726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154137, rend_intergenic: 141582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167949, rend_intergenic: 155682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172545, rend_intergenic: 169297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180371, rend_intergenic: 172908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182368, rend_intergenic: 180376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support