-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_25/scaffold_25_2406897-2615006

-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 GeneMark_model.96061_t
Valid prediction for GlimmerHMM_glimmerT_55045-T1
Valid prediction for snap_scaffold_25-snap.536-T1
Valid prediction for Augustus_model.g36740.t1
Valid prediction for GeneMark_model.96053_t
Valid prediction for snap_scaffold_25-snap.497-T1
Valid prediction for GeneMark_model.96015_t
Valid prediction for snap_scaffold_25-snap.500-T1
Valid prediction for GlimmerHMM_glimmerT_55025-T1
Valid prediction for GlimmerHMM_glimmerT_55024-T1
Valid prediction for GlimmerHMM_glimmerT_55028-T1
Valid prediction for GeneMark_model.96013_t
Valid prediction for snap_scaffold_25-snap.491-T1
Valid prediction for GlimmerHMM_glimmerT_55052-T1
Valid prediction for snap_scaffold_25-snap.511-T1
Valid prediction for GlimmerHMM_glimmerT_55033-T1
Valid prediction for GeneMark_model.96038_t
Valid prediction for snap_scaffold_25-snap.512-T1
Valid prediction for GeneMark_model.96030_t
Valid prediction for Augustus_model.g36738.t1
Valid prediction for GeneMark_model.96056_t
Valid prediction for snap_scaffold_25-snap.502-T1
Valid prediction for Augustus_model.g36732.t1
Valid prediction for GeneMark_model.96009_t
Valid prediction for GeneMark_model.96054_t
Valid prediction for GlimmerHMM_glimmerT_55047-T1
Valid prediction for snap_scaffold_25-snap.522-T1
Valid prediction for GeneMark_model.96003_t
Valid prediction for GlimmerHMM_glimmerT_55044-T1
Valid prediction for GeneMark_model.96058_t
Valid prediction for GeneMark_model.96044_t
Valid prediction for GeneMark_model.96019_t
Valid prediction for GlimmerHMM_glimmerT_55031-T1
Valid prediction for GlimmerHMM_glimmerT_55054-T1
Valid prediction for snap_scaffold_25-snap.520-T1
Valid prediction for GlimmerHMM_glimmerT_55026-T1
Valid prediction for snap_scaffold_25-snap.539-T1
Valid prediction for snap_scaffold_25-snap.493-T1
Valid prediction for GeneMark_model.96060_t
Valid prediction for snap_scaffold_25-snap.529-T1
Valid prediction for Augustus_model.g36733.t1
Valid prediction for GlimmerHMM_glimmerT_55050-T1
Valid prediction for GlimmerHMM_glimmerT_55056-T1
Valid prediction for Augustus_model.g36736.t1
Valid prediction for GeneMark_model.96012_t
Valid prediction for snap_scaffold_25-snap.506-T1
Valid prediction for GeneMark_model.96040_t
Valid prediction for snap_scaffold_25-snap.496-T1
Valid prediction for GlimmerHMM_glimmerT_55035-T1
Valid prediction for GeneMark_model.96024_t
Valid prediction for GeneMark_model.96005_t
Valid prediction for snap_scaffold_25-snap.490-T1
Valid prediction for Augustus_model.g36742.t1
Valid prediction for snap_scaffold_25-snap.519-T1
Valid prediction for Augustus_model.g36734.t1
Valid prediction for GeneMark_model.96011_t
Valid prediction for GeneMark_model.95999_t
Valid prediction for GeneMark_model.95993_t
Valid prediction for GeneMark_model.96021_t
Valid prediction for GeneMark_model.96046_t
Valid prediction for GlimmerHMM_glimmerT_55038-T1
Valid prediction for GeneMark_model.96001_t
Valid prediction for GlimmerHMM_glimmerT_55048-T1
Valid prediction for GlimmerHMM_glimmerT_55030-T1
Valid prediction for GeneMark_model.96042_t
Valid prediction for GeneMark_model.96027_t
Valid prediction for GeneMark_model.96029_t
Valid prediction for snap_scaffold_25-snap.504-T1
Valid prediction for snap_scaffold_25-snap.508-T1
Valid prediction for snap_scaffold_25-snap.487-T1
Valid prediction for GeneMark_model.95995_t
Valid prediction for GlimmerHMM_glimmerT_55051-T1
Valid prediction for snap_scaffold_25-snap.528-T1
Valid prediction for snap_scaffold_25-snap.531-T1
Valid prediction for GlimmerHMM_glimmerT_55039-T1
Valid prediction for snap_scaffold_25-snap.516-T1
Valid prediction for GeneMark_model.96033_t
Valid prediction for snap_scaffold_25-snap.537-T1
Valid prediction for GlimmerHMM_glimmerT_55034-T1
Valid prediction for snap_scaffold_25-snap.510-T1
Valid prediction for GeneMark_model.96017_t
Valid prediction for GeneMark_model.96036_t
Valid prediction for Augustus_model.g36743.t1
Valid prediction for GlimmerHMM_glimmerT_55041-T1
Valid prediction for GeneMark_model.95997_t
Valid prediction for GeneMark_model.96063_t
Valid prediction for GeneMark_model.96048_t
Valid prediction for GeneMark_model.96051_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 GeneMark_model.96002_t
Valid prediction for GeneMark_model.96016_t
Valid prediction for snap_scaffold_25-snap.507-T1
Valid prediction for snap_scaffold_25-snap.530-T1
Valid prediction for snap_scaffold_25-snap.503-T1
Valid prediction for Augustus_model.g36741.t1
Valid prediction for GlimmerHMM_glimmerT_55042-T1
Valid prediction for GlimmerHMM_glimmerT_55055-T1
Valid prediction for GeneMark_model.96006_t
Valid prediction for GeneMark_model.96007_t
Valid prediction for GeneMark_model.96000_t
Valid prediction for GlimmerHMM_glimmerT_55027-T1
Valid prediction for GeneMark_model.96041_t
Valid prediction for GeneMark_model.96022_t
Valid prediction for GeneMark_model.96031_t
Valid prediction for GeneMark_model.96028_t
Valid prediction for GeneMark_model.96026_t
Valid prediction for snap_scaffold_25-snap.533-T1
Valid prediction for snap_scaffold_25-snap.527-T1
Valid prediction for snap_scaffold_25-snap.518-T1
Valid prediction for snap_scaffold_25-snap.514-T1
Valid prediction for GeneMark_model.96049_t
Valid prediction for GlimmerHMM_glimmerT_55037-T1
Valid prediction for snap_scaffold_25-snap.509-T1
Valid prediction for GeneMark_model.95996_t
Valid prediction for GlimmerHMM_glimmerT_55032-T1
Valid prediction for GeneMark_model.96052_t
Valid prediction for GeneMark_model.96043_t
Valid prediction for GeneMark_model.96014_t
Valid prediction for Augustus_model.g36735.t1
Valid prediction for snap_scaffold_25-snap.513-T1
Valid prediction for GeneMark_model.96010_t
Valid prediction for GlimmerHMM_glimmerT_55029-T1
Valid prediction for GeneMark_model.96050_t
Valid prediction for snap_scaffold_25-snap.515-T1
Valid prediction for snap_scaffold_25-snap.495-T1
Valid prediction for snap_scaffold_25-snap.494-T1
Valid prediction for GlimmerHMM_glimmerT_55049-T1
Valid prediction for snap_scaffold_25-snap.534-T1
Valid prediction for snap_scaffold_25-snap.521-T1
Valid prediction for snap_scaffold_25-snap.535-T1
Valid prediction for GeneMark_model.96023_t
Valid prediction for snap_scaffold_25-snap.526-T1
Valid prediction for snap_scaffold_25-snap.488-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_25-snap.489-T1
Valid prediction for snap_scaffold_25-snap.505-T1
Valid prediction for pasa_asmbl_34054.p1
Valid prediction for GeneMark_model.96059_t
Valid prediction for GeneMark_model.96037_t
Valid prediction for GlimmerHMM_glimmerT_55046-T1
Valid prediction for GeneMark_model.95991_t
Valid prediction for snap_scaffold_25-snap.532-T1
Valid prediction for GeneMark_model.96047_t
Valid prediction for GeneMark_model.96025_t
Valid prediction for snap_scaffold_25-snap.525-T1
Valid prediction for GeneMark_model.96055_t
Valid prediction for Augustus_model.g36737.t1
Valid prediction for GeneMark_model.96039_t
Valid prediction for HiQ_model.g36739.t1
Valid prediction for GeneMark_model.96008_t
Valid prediction for snap_scaffold_25-snap.499-T1
Valid prediction for GeneMark_model.95992_t
Valid prediction for GeneMark_model.95998_t
Valid prediction for snap_scaffold_25-snap.492-T1
Valid prediction for snap_scaffold_25-snap.523-T1
Valid prediction for snap_scaffold_25-snap.538-T1
Valid prediction for GlimmerHMM_glimmerT_55040-T1
Valid prediction for GeneMark_model.96045_t
Valid prediction for GlimmerHMM_glimmerT_55053-T1
Valid prediction for GeneMark_model.95994_t
Valid prediction for GeneMark_model.96004_t
Valid prediction for GeneMark_model.96018_t
Valid prediction for GeneMark_model.96035_t
Valid prediction for GlimmerHMM_glimmerT_55036-T1
Valid prediction for GeneMark_model.96062_t
Valid prediction for snap_scaffold_25-snap.517-T1
Valid prediction for snap_scaffold_25-snap.498-T1
Valid prediction for GeneMark_model.96020_t
Valid prediction for GeneMark_model.96034_t
Valid prediction for GeneMark_model.96032_t
Valid prediction for CodingQuarry_transcript_38568-T1
Valid prediction for snap_scaffold_25-snap.501-T1
Valid prediction for GlimmerHMM_glimmerT_55043-T1
Valid prediction for Augustus_model.g36744.t1
Valid prediction for snap_scaffold_25-snap.524-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13511, rend_intergenic: 7963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28827, rend_intergenic: 14082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29937, rend_intergenic: 29806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32501, rend_intergenic: 29955  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39983, rend_intergenic: 32808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47601, rend_intergenic: 40299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52593, rend_intergenic: 49650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59337, rend_intergenic: 57216  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60724, rend_intergenic: 59369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65245, rend_intergenic: 61294  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73428, rend_intergenic: 66259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77223, rend_intergenic: 73862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89163, rend_intergenic: 80045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97817, rend_intergenic: 97060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104107, rend_intergenic: 101659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119355, rend_intergenic: 118420  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146331, rend_intergenic: 119417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174337, rend_intergenic: 154465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180612, rend_intergenic: 176167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181624, rend_intergenic: 180648  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182658, rend_intergenic: 181949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186490, rend_intergenic: 183181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200566, rend_intergenic: 194438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204126, rend_intergenic: 203019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 208110
-exon list size: 982


building trellis

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63.5    
63.6    
63.7    
63.8    
63.9    
64.0    
64.1    
64.2    
64.3    
64.4    
64.5    
64.6    
64.7    
64.8    
64.9    
65.0    
65.1    
65.2    
65.3    
65.4    
65.5    
65.7    
65.8    
65.9    
66.0    
66.1    
66.2    
66.3    
66.4    
66.5    
66.6    
66.7    
66.8    
66.9    
67.0    
67.1    
67.2    
67.3    
67.4    
67.5    
67.6    
67.7    
67.8    
67.9    
68.0    
68.1    
68.2    
68.3    
68.4    
68.5    
68.6    
68.7    
68.8    
68.9    
69.0    
69.1    
69.2    
69.3    
69.4    
69.5    
69.6    
69.7    
69.8    
69.9    
70.0    
70.1    
70.2    
70.3    
70.4    
70.5    
70.6    
70.7    
70.8    
70.9    
71.0    
71.1    
71.2    
71.3    
71.4    
71.5    
71.6    
71.7    
71.8    
72.0    
72.1    
72.2    
72.3    
72.4    
72.5    
72.6    
72.7    
72.8    
72.9    
73.0    
73.1    
73.2    
73.3    
73.4    
73.5    
73.6    
73.7    
73.8    
73.9    
74.0    
74.1    
74.2    
74.3    
74.4    
74.5    
74.6    
74.7    
74.8    
74.9    
75.0    
75.1    
75.2    
75.3    
75.4    
75.5    
75.6    
75.7    
75.8    
75.9    
76.0    
76.1    
76.2    
76.3    
76.4    
76.5    
76.6    
76.7    
76.8    
76.9    
77.0    
77.1    
77.2    
77.3    
77.4    
77.5    
77.6    
77.7    
77.8    
77.9    
78.0    
78.2    
78.3    
78.4    
78.5    
78.6    
78.7    
78.8    
78.9    
79.0    
79.1    
79.2    
79.3    
79.4    
79.5    
79.6    
79.7    
79.8    
79.9    
80.0    
80.1    
80.2    
80.3    
80.4    
80.5    
80.6    
80.7    
80.8    
80.9    
81.0    
81.1    
81.2    
81.3    
81.4    
81.5    
81.6    
81.7    
81.8    
81.9    
82.0    
82.1    
82.2    
82.3    
82.4    
82.5    
82.6    
82.7    
82.8    
82.9    
83.0    
83.1    
83.2    
83.3    
83.4    
83.5    
83.6    
83.7    
83.8    
83.9    
84.0    
84.1    
84.2    
84.3    
84.5    
84.6    
84.7    
84.8    
84.9    
85.0    
85.1    
85.2    
85.3    
85.4    
85.5    
85.6    
85.7    
85.8    
85.9    
86.0    
86.1    
86.2    
86.3    
86.4    
86.5    
86.6    
86.7    
86.8    
86.9    
87.0    
87.1    
87.2    
87.3    
87.4    
87.5    
87.6    
87.7    
87.8    
87.9    
88.0    
88.1    
88.2    
88.3    
88.4    
88.5    
88.6    
88.7    
88.8    
88.9    
89.0    
89.1    
89.2    
89.3    
89.4    
89.5    
89.6    
89.7    
89.8    
89.9    
90.0    
90.1    
90.2    
90.3    
90.4    
90.5    
90.7    
90.8    
90.9    
91.0    
91.1    
91.2    
91.3    
91.4    
91.5    
91.6    
91.7    
91.8    
91.9    
92.0    
92.1    
92.2    
92.3    
92.4    
92.5    
92.6    
92.7    
92.8    
92.9    
93.0    
93.1    
93.2    
93.3    
93.4    
93.5    
93.6    
93.7    
93.8    
93.9    
94.0    
94.1    
94.2    
94.3    
94.4    
94.5    
94.6    
94.7    
94.8    
94.9    
95.0    
95.1    
95.2    
95.3    
95.4    
95.5    
95.6    
95.7    
95.8    
95.9    
96.0    
96.1    
96.2    
96.3    
96.4    
96.5    
96.6    
96.7    
96.8    
97.0    
97.1    
97.2    
97.3    
97.4    
97.5    
97.6    
97.7    
97.8    
97.9    
98.0    
98.1    
98.2    
98.3    
98.4    
98.5    
98.6    
98.7    
98.8    
98.9    
99.0    
99.1    
99.2    
99.3    
99.4    
99.5    
99.6    
99.7    
99.8    
99.9    
-found 50 predictions from path traversal
Error with prediction: snap lend_intergenic: 13511, rend_intergenic: 7963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28827, rend_intergenic: 14082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29937, rend_intergenic: 29806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32501, rend_intergenic: 29955  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39983, rend_intergenic: 32808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47601, rend_intergenic: 40299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52593, rend_intergenic: 49650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59337, rend_intergenic: 57216  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60724, rend_intergenic: 59369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65245, rend_intergenic: 61294  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73428, rend_intergenic: 66259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77223, rend_intergenic: 73862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89163, rend_intergenic: 80045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97817, rend_intergenic: 97060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104107, rend_intergenic: 101659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119355, rend_intergenic: 118420  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146331, rend_intergenic: 119417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174337, rend_intergenic: 154465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180612, rend_intergenic: 176167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181624, rend_intergenic: 180648  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182658, rend_intergenic: 181949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186490, rend_intergenic: 183181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200566, rend_intergenic: 194438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204126, rend_intergenic: 203019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support