-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_11/scaffold_11_1224284-1384983

-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_11-snap.318-T1
Valid prediction for GlimmerHMM_glimmerT_26989-T1
Valid prediction for snap_scaffold_11-snap.321-T1
Valid prediction for Augustus_model.g18061.t1
Valid prediction for GlimmerHMM_glimmerT_26997-T1
Valid prediction for Augustus_model.g18050.t1
Valid prediction for GeneMark_model.46652_t
Valid prediction for snap_scaffold_11-snap.307-T1
Valid prediction for GlimmerHMM_glimmerT_26991-T1
Valid prediction for snap_scaffold_11-snap.313-T1
Valid prediction for Augustus_model.g18051.t1
Valid prediction for GeneMark_model.46646_t
Valid prediction for GeneMark_model.46640_t
Valid prediction for GeneMark_model.46655_t
Valid prediction for GlimmerHMM_glimmerT_27006-T1
Valid prediction for GeneMark_model.46636_t
Valid prediction for GlimmerHMM_glimmerT_27008-T1
Valid prediction for GeneMark_model.46643_t
Valid prediction for GlimmerHMM_glimmerT_27012-T1
Valid prediction for snap_scaffold_11-snap.303-T1
Valid prediction for GeneMark_model.46659_t
Valid prediction for GlimmerHMM_glimmerT_26998-T1
Valid prediction for Augustus_model.g18049.t1
Valid prediction for snap_scaffold_11-snap.290-T1
Valid prediction for snap_scaffold_11-snap.295-T1
Valid prediction for GeneMark_model.46663_t
Valid prediction for snap_scaffold_11-snap.320-T1
Valid prediction for GeneMark_model.46631_t
Valid prediction for snap_scaffold_11-snap.299-T1
Valid prediction for snap_scaffold_11-snap.314-T1
Valid prediction for snap_scaffold_11-snap.308-T1
Valid prediction for snap_scaffold_11-snap.301-T1
Valid prediction for Augustus_model.g18054.t1
Valid prediction for GlimmerHMM_glimmerT_26988-T1
Valid prediction for GlimmerHMM_glimmerT_27011-T1
Valid prediction for snap_scaffold_11-snap.322-T1
Valid prediction for snap_scaffold_11-snap.315-T1
Valid prediction for GlimmerHMM_glimmerT_26992-T1
Valid prediction for snap_scaffold_11-snap.324-T1
Valid prediction for GlimmerHMM_glimmerT_26987-T1
Valid prediction for GlimmerHMM_glimmerT_27013-T1
Valid prediction for snap_scaffold_11-snap.297-T1
Valid prediction for GlimmerHMM_glimmerT_27004-T1
Valid prediction for GlimmerHMM_glimmerT_26993-T1
Valid prediction for GeneMark_model.46662_t
Valid prediction for GeneMark_model.46642_t
Valid prediction for GeneMark_model.46633_t

-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 CodingQuarry_transcript_7938-T1
Valid prediction for snap_scaffold_11-snap.312-T1
Valid prediction for snap_scaffold_11-snap.302-T1
Valid prediction for GlimmerHMM_glimmerT_26999-T1
Valid prediction for GeneMark_model.46647_t
Valid prediction for GeneMark_model.46639_t
Valid prediction for snap_scaffold_11-snap.316-T1
Valid prediction for GlimmerHMM_glimmerT_27001-T1
Valid prediction for HiQ_model.g18055.t1
Valid prediction for snap_scaffold_11-snap.304-T1
Valid prediction for snap_scaffold_11-snap.288-T1
Valid prediction for HiQ_model.g18058.t1
Valid prediction for GlimmerHMM_glimmerT_26994-T1
Valid prediction for Augustus_model.g18059.t1
Valid prediction for GlimmerHMM_glimmerT_26990-T1
Valid prediction for snap_scaffold_11-snap.306-T1
Valid prediction for GlimmerHMM_glimmerT_27002-T1
Valid prediction for GlimmerHMM_glimmerT_27010-T1
Valid prediction for snap_scaffold_11-snap.319-T1
Valid prediction for GeneMark_model.46651_t
Valid prediction for GeneMark_model.46664_t
Valid prediction for GeneMark_model.46660_t
Valid prediction for GeneMark_model.46634_t
Valid prediction for GeneMark_model.46665_t
Valid prediction for GeneMark_model.46657_t
Valid prediction for GlimmerHMM_glimmerT_27014-T1
Valid prediction for pasa_asmbl_6404.p1
Valid prediction for snap_scaffold_11-snap.323-T1
Valid prediction for GlimmerHMM_glimmerT_27003-T1
Valid prediction for GeneMark_model.46661_t
Valid prediction for snap_scaffold_11-snap.296-T1
Valid prediction for snap_scaffold_11-snap.298-T1
Valid prediction for GlimmerHMM_glimmerT_27007-T1
Valid prediction for GeneMark_model.46644_t
Valid prediction for GeneMark_model.46645_t
Valid prediction for CodingQuarry_transcript_7941-T1
Valid prediction for GeneMark_model.46658_t
Valid prediction for GlimmerHMM_glimmerT_26995-T1
Valid prediction for snap_scaffold_11-snap.293-T1
Valid prediction for GeneMark_model.46656_t
Valid prediction for GeneMark_model.46637_t
Valid prediction for snap_scaffold_11-snap.305-T1
Valid prediction for snap_scaffold_11-snap.309-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_11-snap.291-T1
Valid prediction for snap_scaffold_11-snap.317-T1
Valid prediction for Augustus_model.g18053.t1
Valid prediction for GeneMark_model.46648_t
Valid prediction for Augustus_model.g18052.t1
Valid prediction for snap_scaffold_11-snap.289-T1
Valid prediction for GeneMark_model.46649_t
Valid prediction for snap_scaffold_11-snap.292-T1
Valid prediction for GlimmerHMM_glimmerT_27005-T1
Valid prediction for snap_scaffold_11-snap.311-T1
Valid prediction for snap_scaffold_11-snap.300-T1
Valid prediction for snap_scaffold_11-snap.310-T1
Valid prediction for GlimmerHMM_glimmerT_27000-T1
Valid prediction for GlimmerHMM_glimmerT_26996-T1
Valid prediction for GeneMark_model.46650_t
Valid prediction for GeneMark_model.46632_t
Valid prediction for HiQ_model.g18056.t1
Valid prediction for pasa_asmbl_6402.p1
Valid prediction for HiQ_model.g18057.t1
Valid prediction for CodingQuarry_transcript_7939-T1
Valid prediction for CodingQuarry_transcript_7940-T1
Valid prediction for Augustus_model.g18060.t1
Valid prediction for GeneMark_model.46638_t
Valid prediction for GeneMark_model.46635_t
Valid prediction for snap_scaffold_11-snap.294-T1
Valid prediction for GeneMark_model.46641_t
Valid prediction for pasa_asmbl_6394.p1
Valid prediction for GlimmerHMM_glimmerT_27009-T1
Valid prediction for pasa_asmbl_6395.p1
Valid prediction for GeneMark_model.46654_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10742, rend_intergenic: 9647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31569, rend_intergenic: 15682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50575, rend_intergenic: 42645  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51562, rend_intergenic: 50783  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53745, rend_intergenic: 52793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57093, rend_intergenic: 53750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66061, rend_intergenic: 60159  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78881, rend_intergenic: 76673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87777, rend_intergenic: 84707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113828, rend_intergenic: 108997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118369, rend_intergenic: 115376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124732, rend_intergenic: 121256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 113865, rend_intergenic: 113862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 160700
-exon list size: 507


building trellis

0.2    
0.4    
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0.8    
1.0    
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1.6    
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2.0    
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2.4    
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2.8    
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3.5    
3.7    
3.9    
4.1    
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4.5    
4.7    
4.9    
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5.7    
5.9    
6.1    
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6.7    
6.9    
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7.3    
7.5    
7.7    
7.9    
8.1    
8.3    
8.4    
8.6    
8.8    
9.0    
9.2    
9.4    
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9.8    
10.0    
10.2    
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10.8    
11.0    
11.2    
11.4    
11.6    
11.8    
12.0    
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12.8    
13.0    
13.2    
13.4    
13.6    
13.8    
13.9    
14.1    
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14.9    
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15.5    
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15.9    
16.1    
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16.7    
16.9    
17.1    
17.3    
17.5    
17.7    
17.9    
18.1    
18.3    
18.5    
18.7    
18.9    
19.1    
19.3    
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19.6    
19.8    
20.0    
20.2    
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20.6    
20.8    
21.0    
21.2    
21.4    
21.6    
21.8    
22.0    
22.2    
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22.6    
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23.0    
23.2    
23.4    
23.6    
23.8    
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24.2    
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24.8    
25.0    
25.1    
25.3    
25.5    
25.7    
25.9    
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26.7    
26.9    
27.1    
27.3    
27.5    
27.7    
27.9    
28.1    
28.3    
28.5    
28.7    
28.9    
29.1    
29.3    
29.5    
29.7    
29.9    
30.1    
30.3    
30.5    
30.6    
30.8    
31.0    
31.2    
31.4    
31.6    
31.8    
32.0    
32.2    
32.4    
32.6    
32.8    
33.0    
33.2    
33.4    
33.6    
33.8    
34.0    
34.2    
34.4    
34.6    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.1    
36.3    
36.5    
36.7    
36.9    
37.1    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.5    
38.7    
38.9    
39.1    
39.3    
39.5    
39.7    
39.9    
40.1    
40.3    
40.5    
40.7    
40.9    
41.1    
41.3    
41.5    
41.7    
41.8    
42.0    
42.2    
42.4    
42.6    
42.8    
43.0    
43.2    
43.4    
43.6    
43.8    
44.0    
44.2    
44.4    
44.6    
44.8    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.2    
46.4    
46.6    
46.8    
47.0    
47.2    
47.3    
47.5    
47.7    
47.9    
48.1    
48.3    
48.5    
48.7    
48.9    
49.1    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
50.9    
51.1    
51.3    
51.5    
51.7    
51.9    
52.1    
52.3    
52.5    
52.7    
52.8    
53.0    
53.2    
53.4    
53.6    
53.8    
54.0    
54.2    
54.4    
54.6    
54.8    
55.0    
55.2    
55.4    
55.6    
55.8    
56.0    
56.2    
56.4    
56.6    
56.8    
57.0    
57.2    
57.4    
57.6    
57.8    
58.0    
58.2    
58.3    
58.5    
58.7    
58.9    
59.1    
59.3    
59.5    
59.7    
59.9    
60.1    
60.3    
60.5    
60.7    
60.9    
61.1    
61.3    
61.5    
61.7    
61.9    
62.1    
62.3    
62.5    
62.7    
62.9    
63.1    
63.3    
63.5    
63.7    
63.9    
64.0    
64.2    
64.4    
64.6    
64.8    
65.0    
65.2    
65.4    
65.6    
65.8    
66.0    
66.2    
66.4    
66.6    
66.8    
67.0    
67.2    
67.4    
67.6    
67.8    
68.0    
68.2    
68.4    
68.6    
68.8    
69.0    
69.2    
69.4    
69.5    
69.7    
69.9    
70.1    
70.3    
70.5    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
71.9    
72.1    
72.3    
72.5    
72.7    
72.9    
73.1    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.8    
77.0    
77.2    
77.4    
77.6    
77.8    
78.0    
78.2    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.2    
80.4    
80.6    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
81.9    
82.1    
82.3    
82.5    
82.7    
82.9    
83.1    
83.3    
83.5    
83.7    
83.9    
84.1    
84.3    
84.5    
84.7    
84.9    
85.1    
85.3    
85.5    
85.7    
85.9    
86.1    
86.2    
86.4    
86.6    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.6    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.7    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.1    
97.2    
97.4    
97.6    
97.8    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 10742, rend_intergenic: 9647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31569, rend_intergenic: 15682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50575, rend_intergenic: 42645  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51562, rend_intergenic: 50783  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53745, rend_intergenic: 52793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57093, rend_intergenic: 53750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66061, rend_intergenic: 60159  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78881, rend_intergenic: 76673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87777, rend_intergenic: 84707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113828, rend_intergenic: 108997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118369, rend_intergenic: 115376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124732, rend_intergenic: 121256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 113865, rend_intergenic: 113862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support