-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_5/scaffold_5_5086540-5318794

-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_5-snap.1029-T1
Valid prediction for GlimmerHMM_glimmerT_12162-T1
Valid prediction for GeneMark_model.20590_t
Valid prediction for GeneMark_model.20547_t
Valid prediction for snap_scaffold_5-snap.1057-T1
Valid prediction for Augustus_model.g8021.t1
Valid prediction for GeneMark_model.20618_t
Valid prediction for GeneMark_model.20583_t
Valid prediction for GeneMark_model.20570_t
Valid prediction for snap_scaffold_5-snap.1039-T1
Valid prediction for GlimmerHMM_glimmerT_12180-T1
Valid prediction for Augustus_model.g8023.t1
Valid prediction for snap_scaffold_5-snap.1038-T1
Valid prediction for GeneMark_model.20566_t
Valid prediction for GeneMark_model.20581_t
Valid prediction for snap_scaffold_5-snap.1042-T1
Valid prediction for snap_scaffold_5-snap.1031-T1
Valid prediction for GeneMark_model.20593_t
Valid prediction for GlimmerHMM_glimmerT_12158-T1
Valid prediction for GlimmerHMM_glimmerT_12183-T1
Valid prediction for GeneMark_model.20564_t
Valid prediction for GeneMark_model.20557_t
Valid prediction for GlimmerHMM_glimmerT_12181-T1
Valid prediction for GeneMark_model.20549_t
Valid prediction for snap_scaffold_5-snap.1043-T1
Valid prediction for GeneMark_model.20623_t
Valid prediction for GlimmerHMM_glimmerT_12161-T1
Valid prediction for GlimmerHMM_glimmerT_12167-T1
Valid prediction for GeneMark_model.20553_t
Valid prediction for Augustus_model.g8025.t1
Valid prediction for GlimmerHMM_glimmerT_12156-T1
Valid prediction for GeneMark_model.20606_t
Valid prediction for GeneMark_model.20560_t
Valid prediction for GeneMark_model.20595_t
Valid prediction for GeneMark_model.20607_t
Valid prediction for GeneMark_model.20598_t
Valid prediction for GeneMark_model.20562_t
Valid prediction for Augustus_model.g8014.t1
Valid prediction for GeneMark_model.20620_t
Valid prediction for GeneMark_model.20569_t
Valid prediction for GlimmerHMM_glimmerT_12176-T1
Valid prediction for GlimmerHMM_glimmerT_12175-T1
Valid prediction for snap_scaffold_5-snap.1049-T1
Valid prediction for GeneMark_model.20596_t
Valid prediction for snap_scaffold_5-snap.1035-T1
Valid prediction for snap_scaffold_5-snap.1032-T1
Valid prediction for snap_scaffold_5-snap.1047-T1
Valid prediction for GeneMark_model.20586_t
Valid prediction for GeneMark_model.20604_t
Valid prediction for GlimmerHMM_glimmerT_12155-T1
Valid prediction for GeneMark_model.20588_t
Valid prediction for GlimmerHMM_glimmerT_12178-T1
Valid prediction for GeneMark_model.20571_t
Valid prediction for snap_scaffold_5-snap.1052-T1
Valid prediction for GeneMark_model.20609_t
Valid prediction for GeneMark_model.20600_t
Valid prediction for GeneMark_model.20616_t
Valid prediction for GlimmerHMM_glimmerT_12173-T1
Valid prediction for snap_scaffold_5-snap.1064-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g8029.t1
Valid prediction for snap_scaffold_5-snap.1036-T1
Valid prediction for GeneMark_model.20576_t
Valid prediction for snap_scaffold_5-snap.1051-T1
Valid prediction for snap_scaffold_5-snap.1034-T1
Valid prediction for GeneMark_model.20551_t
Valid prediction for GeneMark_model.20611_t
Valid prediction for GeneMark_model.20625_t
Valid prediction for Augustus_model.g8022.t1
Valid prediction for snap_scaffold_5-snap.1027-T1
Valid prediction for Augustus_model.g8027.t1
Valid prediction for GlimmerHMM_glimmerT_12163-T1
Valid prediction for Augustus_model.g8020.t1
Valid prediction for GeneMark_model.20573_t
Valid prediction for snap_scaffold_5-snap.1024-T1
Valid prediction for GeneMark_model.20554_t
Valid prediction for snap_scaffold_5-snap.1037-T1
Valid prediction for GeneMark_model.20567_t
Valid prediction for GeneMark_model.20614_t
Valid prediction for snap_scaffold_5-snap.1026-T1
Valid prediction for GeneMark_model.20591_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 GlimmerHMM_glimmerT_12166-T1
Valid prediction for GeneMark_model.20558_t
Valid prediction for Augustus_model.g8024.t1
Valid prediction for snap_scaffold_5-snap.1028-T1
Valid prediction for GeneMark_model.20584_t
Valid prediction for snap_scaffold_5-snap.1061-T1
Valid prediction for GeneMark_model.20617_t
Valid prediction for snap_scaffold_5-snap.1044-T1
Valid prediction for GlimmerHMM_glimmerT_12172-T1
Valid prediction for GeneMark_model.20594_t
Valid prediction for Augustus_model.g8026.t1
Valid prediction for snap_scaffold_5-snap.1055-T1
Valid prediction for GeneMark_model.20556_t
Valid prediction for GeneMark_model.20572_t
Valid prediction for snap_scaffold_5-snap.1054-T1
Valid prediction for GeneMark_model.20603_t
Valid prediction for pasa_asmbl_45421.p1
Valid prediction for Augustus_model.g8013.t1
Valid prediction for CodingQuarry_transcript_51935-T1
Valid prediction for GlimmerHMM_glimmerT_12168-T1
Valid prediction for snap_scaffold_5-snap.1046-T1
Valid prediction for snap_scaffold_5-snap.1053-T1
Valid prediction for Augustus_model.g8011.t1
Valid prediction for HiQ_model.g8019.t1
Valid prediction for GlimmerHMM_glimmerT_12170-T1
Valid prediction for GeneMark_model.20626_t
Valid prediction for GeneMark_model.20592_t
Valid prediction for GeneMark_model.20601_t
Valid prediction for GeneMark_model.20608_t
Valid prediction for GeneMark_model.20582_t
Valid prediction for Augustus_model.g8015.t1
Valid prediction for GeneMark_model.20559_t
Valid prediction for GlimmerHMM_glimmerT_12177-T1
Valid prediction for GlimmerHMM_glimmerT_12160-T1
Valid prediction for GlimmerHMM_glimmerT_12157-T1
Valid prediction for GeneMark_model.20563_t
Valid prediction for GlimmerHMM_glimmerT_12182-T1
Valid prediction for GeneMark_model.20622_t
Valid prediction for GeneMark_model.20613_t
Valid prediction for GeneMark_model.20579_t
Valid prediction for GeneMark_model.20589_t
Valid prediction for GeneMark_model.20561_t
Valid prediction for snap_scaffold_5-snap.1062-T1
Valid prediction for GeneMark_model.20610_t
Valid prediction for GeneMark_model.20615_t
Valid prediction for GlimmerHMM_glimmerT_12179-T1
Valid prediction for GeneMark_model.20577_t
Valid prediction for GlimmerHMM_glimmerT_12174-T1
Valid prediction for snap_scaffold_5-snap.1050-T1
Valid prediction for snap_scaffold_5-snap.1025-T1
Valid prediction for GeneMark_model.20555_t
Valid prediction for GeneMark_model.20574_t
Valid prediction for GeneMark_model.20619_t
Valid prediction for GeneMark_model.20565_t
Valid prediction for snap_scaffold_5-snap.1023-T1
Valid prediction for snap_scaffold_5-snap.1033-T1
Valid prediction for GlimmerHMM_glimmerT_12164-T1
Valid prediction for GeneMark_model.20605_t
Valid prediction for snap_scaffold_5-snap.1058-T1
Valid prediction for GeneMark_model.20624_t
Valid prediction for GlimmerHMM_glimmerT_12159-T1
Valid prediction for Augustus_model.g8010.t1
Valid prediction for snap_scaffold_5-snap.1060-T1
Valid prediction for Augustus_model.g8016.t1
Valid prediction for GlimmerHMM_glimmerT_12171-T1
Valid prediction for GeneMark_model.20587_t
Valid prediction for GlimmerHMM_glimmerT_12169-T1
Valid prediction for GeneMark_model.20599_t
Valid prediction for GeneMark_model.20585_t
Valid prediction for GlimmerHMM_glimmerT_12165-T1
Valid prediction for Augustus_model.g8017.t1
Valid prediction for Augustus_model.g8012.t1
Valid prediction for snap_scaffold_5-snap.1056-T1
Valid prediction for GeneMark_model.20550_t
Valid prediction for snap_scaffold_5-snap.1059-T1
Valid prediction for snap_scaffold_5-snap.1048-T1
Valid prediction for GeneMark_model.20621_t
Valid prediction for GeneMark_model.20580_t
Valid prediction for snap_scaffold_5-snap.1041-T1
Valid prediction for snap_scaffold_5-snap.1045-T1
Valid prediction for Augustus_model.g8018.t1
Valid prediction for GeneMark_model.20578_t
Valid prediction for GeneMark_model.20552_t
Valid prediction for snap_scaffold_5-snap.1040-T1
Valid prediction for GeneMark_model.20568_t
Valid prediction for GlimmerHMM_glimmerT_12184-T1
Valid prediction for snap_scaffold_5-snap.1030-T1
Valid prediction for GeneMark_model.20597_t
Valid prediction for snap_scaffold_5-snap.1063-T1
Valid prediction for GeneMark_model.20575_t
Valid prediction for Augustus_model.g8028.t1
Valid prediction for GeneMark_model.20602_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 119211, rend_intergenic: 119208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6355, rend_intergenic: 6112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10853, rend_intergenic: 6936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18049, rend_intergenic: 10855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27180, rend_intergenic: 21066  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29874, rend_intergenic: 27409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34372, rend_intergenic: 31245  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66458, rend_intergenic: 46819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77642, rend_intergenic: 70723  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111938, rend_intergenic: 99514  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116365, rend_intergenic: 113146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121017, rend_intergenic: 119495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122807, rend_intergenic: 121156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134533, rend_intergenic: 123110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146950, rend_intergenic: 137110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214636, rend_intergenic: 159838  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226944, rend_intergenic: 215627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 232255
-exon list size: 1069


building trellis

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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    
65.5    
65.6    
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    
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    
68.3    
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    
69.7    
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    
71.1    
71.2    
71.3    
71.4    
71.5    
71.6    
71.7    
71.8    
71.9    
72.0    
72.1    
72.2    
72.3    
72.4    
72.5    
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    
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    
75.4    
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    
76.8    
76.9    
77.0    
77.1    
77.2    
77.3    
77.4    
77.5    
77.6    
77.7    
77.8    
77.9    
78.0    
78.1    
78.2    
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    
79.6    
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    
81.0    
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    
82.4    
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    
83.8    
83.9    
84.0    
84.1    
84.2    
84.3    
84.4    
84.5    
84.6    
84.7    
84.8    
84.9    
85.0    
85.1    
85.2    
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    
86.6    
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    
88.0    
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    
89.4    
89.5    
89.6    
89.7    
89.8    
89.9    
90.0    
90.1    
90.2    
90.3    
90.4    
90.5    
90.6    
90.7    
90.8    
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    
92.3    
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    
93.7    
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    
95.1    
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    
96.5    
96.6    
96.7    
96.8    
96.9    
97.0    
97.1    
97.2    
97.3    
97.4    
97.5    
97.6    
97.7    
97.8    
97.9    
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    
99.3    
99.4    
99.5    
99.6    
99.7    
99.8    
99.9    
-found 49 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 119211, rend_intergenic: 119208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6355, rend_intergenic: 6112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10853, rend_intergenic: 6936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18049, rend_intergenic: 10855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27180, rend_intergenic: 21066  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29874, rend_intergenic: 27409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34372, rend_intergenic: 31245  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66458, rend_intergenic: 46819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77642, rend_intergenic: 70723  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111938, rend_intergenic: 99514  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116365, rend_intergenic: 113146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121017, rend_intergenic: 119495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122807, rend_intergenic: 121156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134533, rend_intergenic: 123110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146950, rend_intergenic: 137110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214636, rend_intergenic: 159838  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226944, rend_intergenic: 215627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support