-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_12/scaffold_12_13695742-13903109

-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.53602_t
Valid prediction for GeneMark_model.53549_t
Valid prediction for GlimmerHMM_glimmerT_31027-T1
Valid prediction for snap_scaffold_12-snap.2619-T1
Valid prediction for GlimmerHMM_glimmerT_31056-T1
Valid prediction for snap_scaffold_12-snap.2597-T1
Valid prediction for GeneMark_model.53587_t
Valid prediction for snap_scaffold_12-snap.2622-T1
Valid prediction for snap_scaffold_12-snap.2581-T1
Valid prediction for snap_scaffold_12-snap.2574-T1
Valid prediction for Augustus_model.g20715.t1
Valid prediction for GlimmerHMM_glimmerT_31062-T1
Valid prediction for GeneMark_model.53546_t
Valid prediction for GlimmerHMM_glimmerT_31047-T1
Valid prediction for snap_scaffold_12-snap.2607-T1
Valid prediction for snap_scaffold_12-snap.2602-T1
Valid prediction for Augustus_model.g20707.t1
Valid prediction for Augustus_model.g20705.t1
Valid prediction for snap_scaffold_12-snap.2612-T1
Valid prediction for GeneMark_model.53595_t
Valid prediction for snap_scaffold_12-snap.2606-T1
Valid prediction for snap_scaffold_12-snap.2593-T1
Valid prediction for GeneMark_model.53608_t
Valid prediction for snap_scaffold_12-snap.2610-T1
Valid prediction for GlimmerHMM_glimmerT_31050-T1
Valid prediction for GeneMark_model.53551_t
Valid prediction for GlimmerHMM_glimmerT_31044-T1
Valid prediction for GeneMark_model.53554_t
Valid prediction for GeneMark_model.53586_t
Valid prediction for snap_scaffold_12-snap.2616-T1
Valid prediction for GeneMark_model.53612_t
Valid prediction for GeneMark_model.53618_t
Valid prediction for GlimmerHMM_glimmerT_31051-T1
Valid prediction for GlimmerHMM_glimmerT_31035-T1
Valid prediction for GeneMark_model.53548_t
Valid prediction for GeneMark_model.53621_t
Valid prediction for GeneMark_model.53614_t
Valid prediction for GlimmerHMM_glimmerT_31040-T1
Valid prediction for GeneMark_model.53565_t
Valid prediction for snap_scaffold_12-snap.2579-T1
Valid prediction for GeneMark_model.53616_t
Valid prediction for snap_scaffold_12-snap.2621-T1
Valid prediction for GeneMark_model.53596_t
Valid prediction for snap_scaffold_12-snap.2577-T1
Valid prediction for GeneMark_model.53623_t
Valid prediction for GeneMark_model.53600_t
Valid prediction for snap_scaffold_12-snap.2583-T1
Valid prediction for GeneMark_model.53571_t
Valid prediction for Augustus_model.g20703.t1
Valid prediction for GeneMark_model.53583_t
Valid prediction for GeneMark_model.53578_t
Valid prediction for GlimmerHMM_glimmerT_31059-T1
Valid prediction for GeneMark_model.53580_t
Valid prediction for GeneMark_model.53574_t
Valid prediction for GeneMark_model.53598_t
Valid prediction for GeneMark_model.53594_t
Valid prediction for Augustus_model.g20708.t1
Valid prediction for GeneMark_model.53605_t
Valid prediction for snap_scaffold_12-snap.2592-T1
Valid prediction for snap_scaffold_12-snap.2604-T1
Valid prediction for GeneMark_model.53552_t
Valid prediction for GlimmerHMM_glimmerT_31033-T1
Valid prediction for GeneMark_model.53576_t
Valid prediction for GeneMark_model.53560_t
Valid prediction for snap_scaffold_12-snap.2618-T1
Valid prediction for GeneMark_model.53562_t
Valid prediction for snap_scaffold_12-snap.2587-T1
Valid prediction for GeneMark_model.53610_t
Valid prediction for snap_scaffold_12-snap.2589-T1
Valid prediction for snap_scaffold_12-snap.2576-T1
Valid prediction for GeneMark_model.53569_t
Valid prediction for snap_scaffold_12-snap.2599-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_12-snap.2611-T1
Valid prediction for Augustus_model.g20716.t1
Valid prediction for GeneMark_model.53570_t
Valid prediction for GeneMark_model.53557_t
Valid prediction for GlimmerHMM_glimmerT_31041-T1
Valid prediction for snap_scaffold_12-snap.2578-T1
Valid prediction for GlimmerHMM_glimmerT_31049-T1
Valid prediction for GlimmerHMM_glimmerT_31048-T1
Valid prediction for snap_scaffold_12-snap.2591-T1
Valid prediction for snap_scaffold_12-snap.2590-T1
Valid prediction for GlimmerHMM_glimmerT_31053-T1
Valid prediction for GeneMark_model.53599_t
Valid prediction for snap_scaffold_12-snap.2623-T1
Valid prediction for GlimmerHMM_glimmerT_31042-T1
Valid prediction for GeneMark_model.53617_t
Valid prediction for Augustus_model.g20709.t1
Valid prediction for Augustus_model.g20713.t1
Valid prediction for GeneMark_model.53579_t
Valid prediction for snap_scaffold_12-snap.2575-T1
Valid prediction for snap_scaffold_12-snap.2620-T1
Valid prediction for snap_scaffold_12-snap.2595-T1
Valid prediction for GlimmerHMM_glimmerT_31030-T1
Valid prediction for GeneMark_model.53567_t
Valid prediction for GeneMark_model.53566_t
Valid prediction for snap_scaffold_12-snap.2613-T1
Valid prediction for GlimmerHMM_glimmerT_31060-T1
Valid prediction for Augustus_model.g20702.t1
Valid prediction for snap_scaffold_12-snap.2609-T1
Valid prediction for GeneMark_model.53581_t
Valid prediction for Augustus_model.g20706.t1
Valid prediction for GeneMark_model.53550_t
Valid prediction for GlimmerHMM_glimmerT_31058-T1
Valid prediction for GlimmerHMM_glimmerT_31026-T1
Valid prediction for GeneMark_model.53588_t
Valid prediction for GeneMark_model.53615_t
Valid prediction for snap_scaffold_12-snap.2603-T1
Valid prediction for GeneMark_model.53591_t
Valid prediction for GeneMark_model.53545_t
Valid prediction for GlimmerHMM_glimmerT_31028-T1
Valid prediction for GlimmerHMM_glimmerT_31038-T1
Valid prediction for GeneMark_model.53572_t
Valid prediction for snap_scaffold_12-snap.2601-T1
Valid prediction for GeneMark_model.53563_t
Valid prediction for GlimmerHMM_glimmerT_31029-T1
Valid prediction for Augustus_model.g20714.t1
Valid prediction for GeneMark_model.53573_t
Valid prediction for GlimmerHMM_glimmerT_31036-T1
Valid prediction for snap_scaffold_12-snap.2588-T1
Valid prediction for GlimmerHMM_glimmerT_31057-T1
Valid prediction for GeneMark_model.53585_t
Valid prediction for GeneMark_model.53607_t
Valid prediction for GeneMark_model.53601_t
Valid prediction for Augustus_model.g20718.t1
Valid prediction for GeneMark_model.53620_t
Valid prediction for Augustus_model.g20704.t1
Valid prediction for GeneMark_model.53582_t
Valid prediction for GlimmerHMM_glimmerT_31045-T1
Valid prediction for GeneMark_model.53606_t
Valid prediction for GlimmerHMM_glimmerT_31052-T1
Valid prediction for GlimmerHMM_glimmerT_31054-T1
Valid prediction for snap_scaffold_12-snap.2586-T1
Valid prediction for GeneMark_model.53592_t
Valid prediction for GeneMark_model.53611_t
Valid prediction for GeneMark_model.53590_t
Valid prediction for GlimmerHMM_glimmerT_31043-T1
Valid prediction for snap_scaffold_12-snap.2617-T1
Valid prediction for GeneMark_model.53547_t
Valid prediction for Augustus_model.g20711.t1
Valid prediction for snap_scaffold_12-snap.2596-T1
Valid prediction for GeneMark_model.53577_t
Valid prediction for snap_scaffold_12-snap.2582-T1
Valid prediction for GeneMark_model.53556_t
Valid prediction for snap_scaffold_12-snap.2598-T1
Valid prediction for GeneMark_model.53561_t
Valid prediction for GeneMark_model.53559_t
Valid prediction for snap_scaffold_12-snap.2585-T1
Valid prediction for GeneMark_model.53553_t
Valid prediction for GeneMark_model.53597_t
Valid prediction for GeneMark_model.53593_t
Valid prediction for GeneMark_model.53622_t
Valid prediction for GeneMark_model.53589_t
Valid prediction for GeneMark_model.53604_t
Valid prediction for Augustus_model.g20717.t1
Valid prediction for GlimmerHMM_glimmerT_31034-T1
Valid prediction for snap_scaffold_12-snap.2600-T1
Valid prediction for GeneMark_model.53584_t
Valid prediction for Augustus_model.g20710.t1
Valid prediction for GlimmerHMM_glimmerT_31037-T1
Valid prediction for snap_scaffold_12-snap.2615-T1
Valid prediction for snap_scaffold_12-snap.2605-T1
Valid prediction for snap_scaffold_12-snap.2614-T1
Valid prediction for snap_scaffold_12-snap.2594-T1
Valid prediction for GlimmerHMM_glimmerT_31055-T1
Valid prediction for GeneMark_model.53603_t
Valid prediction for GeneMark_model.53613_t
Valid prediction for GlimmerHMM_glimmerT_31046-T1
Valid prediction for Augustus_model.g20712.t1
Valid prediction for snap_scaffold_12-snap.2584-T1
Valid prediction for GeneMark_model.53564_t
Valid prediction for GeneMark_model.53555_t
Valid prediction for snap_scaffold_12-snap.2608-T1
Valid prediction for GeneMark_model.53609_t
Valid prediction for snap_scaffold_12-snap.2580-T1
Valid prediction for GlimmerHMM_glimmerT_31032-T1
Valid prediction for GlimmerHMM_glimmerT_31061-T1
Valid prediction for GeneMark_model.53558_t
Valid prediction for GlimmerHMM_glimmerT_31039-T1
Valid prediction for GlimmerHMM_glimmerT_31031-T1
Valid prediction for GeneMark_model.53619_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 4657, rend_intergenic: 4654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12692, rend_intergenic: 5042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20036, rend_intergenic: 15529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22066, rend_intergenic: 20078  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27794, rend_intergenic: 25149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34871, rend_intergenic: 27839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59989, rend_intergenic: 38858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72197, rend_intergenic: 61213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89360, rend_intergenic: 83953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93269, rend_intergenic: 91178  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95985, rend_intergenic: 93300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103891, rend_intergenic: 96049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108818, rend_intergenic: 106858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110798, rend_intergenic: 108963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115172, rend_intergenic: 111691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117105, rend_intergenic: 115482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132344, rend_intergenic: 117779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147350, rend_intergenic: 137976  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151278, rend_intergenic: 149877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158400, rend_intergenic: 155074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174356, rend_intergenic: 162994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183729, rend_intergenic: 175871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189808, rend_intergenic: 186310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194573, rend_intergenic: 190335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201261, rend_intergenic: 199133  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 207368
-exon list size: 838


building trellis

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70.0    
70.1    
70.2    
70.4    
70.5    
70.6    
70.7    
70.8    
71.0    
71.1    
71.2    
71.3    
71.4    
71.5    
71.7    
71.8    
71.9    
72.0    
72.1    
72.3    
72.4    
72.5    
72.6    
72.7    
72.9    
73.0    
73.1    
73.2    
73.3    
73.5    
73.6    
73.7    
73.8    
73.9    
74.0    
74.2    
74.3    
74.4    
74.5    
74.6    
74.8    
74.9    
75.0    
75.1    
75.2    
75.4    
75.5    
75.6    
75.7    
75.8    
76.0    
76.1    
76.2    
76.3    
76.4    
76.5    
76.7    
76.8    
76.9    
77.0    
77.1    
77.3    
77.4    
77.5    
77.6    
77.7    
77.9    
78.0    
78.1    
78.2    
78.3    
78.5    
78.6    
78.7    
78.8    
78.9    
79.0    
79.2    
79.3    
79.4    
79.5    
79.6    
79.8    
79.9    
80.0    
80.1    
80.2    
80.4    
80.5    
80.6    
80.7    
80.8    
81.0    
81.1    
81.2    
81.3    
81.4    
81.5    
81.7    
81.8    
81.9    
82.0    
82.1    
82.3    
82.4    
82.5    
82.6    
82.7    
82.9    
83.0    
83.1    
83.2    
83.3    
83.5    
83.6    
83.7    
83.8    
83.9    
84.0    
84.2    
84.3    
84.4    
84.5    
84.6    
84.8    
84.9    
85.0    
85.1    
85.2    
85.4    
85.5    
85.6    
85.7    
85.8    
86.0    
86.1    
86.2    
86.3    
86.4    
86.5    
86.7    
86.8    
86.9    
87.0    
87.1    
87.3    
87.4    
87.5    
87.6    
87.7    
87.9    
88.0    
88.1    
88.2    
88.3    
88.5    
88.6    
88.7    
88.8    
88.9    
89.0    
89.2    
89.3    
89.4    
89.5    
89.6    
89.8    
89.9    
90.0    
90.1    
90.2    
90.4    
90.5    
90.6    
90.7    
90.8    
91.0    
91.1    
91.2    
91.3    
91.4    
91.5    
91.7    
91.8    
91.9    
92.0    
92.1    
92.3    
92.4    
92.5    
92.6    
92.7    
92.9    
93.0    
93.1    
93.2    
93.3    
93.5    
93.6    
93.7    
93.8    
93.9    
94.0    
94.2    
94.3    
94.4    
94.5    
94.6    
94.8    
94.9    
95.0    
95.1    
95.2    
95.4    
95.5    
95.6    
95.7    
95.8    
96.0    
96.1    
96.2    
96.3    
96.4    
96.5    
96.7    
96.8    
96.9    
97.0    
97.1    
97.3    
97.4    
97.5    
97.6    
97.7    
97.9    
98.0    
98.1    
98.2    
98.3    
98.5    
98.6    
98.7    
98.8    
98.9    
99.0    
99.2    
99.3    
99.4    
99.5    
99.6    
99.8    
99.9    
-found 57 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 4657, rend_intergenic: 4654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12692, rend_intergenic: 5042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20036, rend_intergenic: 15529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22066, rend_intergenic: 20078  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27794, rend_intergenic: 25149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34871, rend_intergenic: 27839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59989, rend_intergenic: 38858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72197, rend_intergenic: 61213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89360, rend_intergenic: 83953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93269, rend_intergenic: 91178  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95985, rend_intergenic: 93300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103891, rend_intergenic: 96049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108818, rend_intergenic: 106858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110798, rend_intergenic: 108963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115172, rend_intergenic: 111691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117105, rend_intergenic: 115482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132344, rend_intergenic: 117779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147350, rend_intergenic: 137976  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151278, rend_intergenic: 149877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158400, rend_intergenic: 155074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174356, rend_intergenic: 162994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183729, rend_intergenic: 175871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189808, rend_intergenic: 186310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194573, rend_intergenic: 190335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201261, rend_intergenic: 199133  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support