-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_4/scaffold_4_11940521-12137128

-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.17166_t
Valid prediction for GlimmerHMM_glimmerT_10534-T1
Valid prediction for GeneMark_model.17200_t
Valid prediction for GeneMark_model.17192_t
Valid prediction for GlimmerHMM_glimmerT_10536-T1
Valid prediction for GeneMark_model.17171_t
Valid prediction for GeneMark_model.17219_t
Valid prediction for GeneMark_model.17198_t
Valid prediction for snap_scaffold_4-snap.2578-T1
Valid prediction for Augustus_model.g6910.t1
Valid prediction for GeneMark_model.17168_t
Valid prediction for snap_scaffold_4-snap.2560-T1
Valid prediction for GlimmerHMM_glimmerT_10550-T1
Valid prediction for GeneMark_model.17203_t
Valid prediction for GlimmerHMM_glimmerT_10555-T1
Valid prediction for snap_scaffold_4-snap.2549-T1
Valid prediction for GeneMark_model.17201_t
Valid prediction for Augustus_model.g6897.t1
Valid prediction for GeneMark_model.17205_t
Valid prediction for snap_scaffold_4-snap.2589-T1
Valid prediction for snap_scaffold_4-snap.2561-T1
Valid prediction for GlimmerHMM_glimmerT_10532-T1
Valid prediction for snap_scaffold_4-snap.2562-T1
Valid prediction for Augustus_model.g6903.t1
Valid prediction for snap_scaffold_4-snap.2546-T1
Valid prediction for GeneMark_model.17172_t
Valid prediction for snap_scaffold_4-snap.2591-T1
Valid prediction for GeneMark_model.17210_t
Valid prediction for GeneMark_model.17211_t
Valid prediction for snap_scaffold_4-snap.2579-T1
Valid prediction for Augustus_model.g6911.t1
Valid prediction for GeneMark_model.17207_t
Valid prediction for snap_scaffold_4-snap.2571-T1
Valid prediction for GeneMark_model.17218_t
Valid prediction for snap_scaffold_4-snap.2557-T1
Valid prediction for snap_scaffold_4-snap.2568-T1
Valid prediction for GlimmerHMM_glimmerT_10544-T1
Valid prediction for GeneMark_model.17223_t
Valid prediction for GlimmerHMM_glimmerT_10541-T1
Valid prediction for GlimmerHMM_glimmerT_10551-T1
Valid prediction for GlimmerHMM_glimmerT_10549-T1
Valid prediction for GlimmerHMM_glimmerT_10537-T1
Valid prediction for GlimmerHMM_glimmerT_10547-T1
Valid prediction for GeneMark_model.17214_t
Valid prediction for Augustus_model.g6906.t1
Valid prediction for GeneMark_model.17194_t
Valid prediction for Augustus_model.g6907.t1
Valid prediction for snap_scaffold_4-snap.2586-T1
Valid prediction for GeneMark_model.17224_t
Valid prediction for snap_scaffold_4-snap.2566-T1
Valid prediction for GlimmerHMM_glimmerT_10543-T1
Valid prediction for snap_scaffold_4-snap.2592-T1
Valid prediction for GeneMark_model.17185_t
Valid prediction for Augustus_model.g6899.t1
Valid prediction for GlimmerHMM_glimmerT_10557-T1
Valid prediction for GeneMark_model.17215_t
Valid prediction for GeneMark_model.17175_t
Valid prediction for snap_scaffold_4-snap.2573-T1
Valid prediction for snap_scaffold_4-snap.2575-T1
Valid prediction for snap_scaffold_4-snap.2555-T1
Valid prediction for snap_scaffold_4-snap.2552-T1
Valid prediction for snap_scaffold_4-snap.2572-T1
Valid prediction for GeneMark_model.17189_t
Valid prediction for GeneMark_model.17183_t
Valid prediction for GeneMark_model.17220_t
Valid prediction for GeneMark_model.17204_t
Valid prediction for snap_scaffold_4-snap.2548-T1
Valid prediction for GlimmerHMM_glimmerT_10554-T1
Valid prediction for snap_scaffold_4-snap.2585-T1
Valid prediction for GeneMark_model.17190_t
Valid prediction for snap_scaffold_4-snap.2583-T1
Valid prediction for GeneMark_model.17180_t
Valid prediction for snap_scaffold_4-snap.2576-T1
Valid prediction for snap_scaffold_4-snap.2554-T1
Valid prediction for GeneMark_model.17217_t
Valid prediction for GeneMark_model.17212_t
Valid prediction for GeneMark_model.17196_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 snap_scaffold_4-snap.2553-T1
Valid prediction for GlimmerHMM_glimmerT_10556-T1
Valid prediction for GeneMark_model.17202_t
Valid prediction for GeneMark_model.17209_t
Valid prediction for HiQ_model.g6898.t1
Valid prediction for Augustus_model.g6905.t1
Valid prediction for GeneMark_model.17186_t
Valid prediction for GlimmerHMM_glimmerT_10545-T1
Valid prediction for GeneMark_model.17222_t
Valid prediction for Augustus_model.g6909.t1
Valid prediction for GeneMark_model.17199_t
Valid prediction for snap_scaffold_4-snap.2570-T1
Valid prediction for GeneMark_model.17177_t
Valid prediction for Augustus_model.g6913.t1
Valid prediction for GeneMark_model.17216_t
Valid prediction for GeneMark_model.17208_t
Valid prediction for snap_scaffold_4-snap.2577-T1
Valid prediction for GeneMark_model.17193_t
Valid prediction for GeneMark_model.17179_t
Valid prediction for snap_scaffold_4-snap.2567-T1
Valid prediction for GeneMark_model.17195_t
Valid prediction for GeneMark_model.17167_t
Valid prediction for GeneMark_model.17181_t
Valid prediction for snap_scaffold_4-snap.2551-T1
Valid prediction for GeneMark_model.17169_t
Valid prediction for Augustus_model.g6901.t1
Valid prediction for GeneMark_model.17188_t
Valid prediction for snap_scaffold_4-snap.2580-T1
Valid prediction for snap_scaffold_4-snap.2550-T1
Valid prediction for snap_scaffold_4-snap.2581-T1
Valid prediction for snap_scaffold_4-snap.2559-T1
Valid prediction for GeneMark_model.17191_t
Valid prediction for GeneMark_model.17221_t
Valid prediction for Augustus_model.g6902.t1
Valid prediction for GeneMark_model.17178_t
Valid prediction for GlimmerHMM_glimmerT_10560-T1
Valid prediction for GlimmerHMM_glimmerT_10542-T1
Valid prediction for GeneMark_model.17176_t
Valid prediction for GeneMark_model.17182_t
Valid prediction for GlimmerHMM_glimmerT_10535-T1
Valid prediction for snap_scaffold_4-snap.2558-T1
Valid prediction for snap_scaffold_4-snap.2584-T1
Valid prediction for snap_scaffold_4-snap.2582-T1
Valid prediction for Augustus_model.g6912.t1
Valid prediction for GeneMark_model.17184_t
Valid prediction for GlimmerHMM_glimmerT_10559-T1
Valid prediction for snap_scaffold_4-snap.2564-T1
Valid prediction for snap_scaffold_4-snap.2588-T1
Valid prediction for snap_scaffold_4-snap.2565-T1
Valid prediction for GeneMark_model.17173_t
Valid prediction for snap_scaffold_4-snap.2545-T1
Valid prediction for GeneMark_model.17170_t
Valid prediction for GlimmerHMM_glimmerT_10558-T1
Valid prediction for GeneMark_model.17206_t
Valid prediction for GlimmerHMM_glimmerT_10546-T1
Valid prediction for GlimmerHMM_glimmerT_10539-T1
Valid prediction for snap_scaffold_4-snap.2574-T1
Valid prediction for GlimmerHMM_glimmerT_10552-T1
Valid prediction for GlimmerHMM_glimmerT_10538-T1
Valid prediction for GlimmerHMM_glimmerT_10553-T1
Valid prediction for Augustus_model.g6908.t1
Valid prediction for GlimmerHMM_glimmerT_10548-T1
Valid prediction for snap_scaffold_4-snap.2556-T1
Valid prediction for GeneMark_model.17165_t
Valid prediction for GeneMark_model.17174_t
Valid prediction for snap_scaffold_4-snap.2587-T1
Valid prediction for snap_scaffold_4-snap.2563-T1
Valid prediction for Augustus_model.g6914.t1
Valid prediction for GeneMark_model.17213_t
Valid prediction for GlimmerHMM_glimmerT_10531-T1
Valid prediction for snap_scaffold_4-snap.2569-T1
Valid prediction for Augustus_model.g6900.t1
Valid prediction for GlimmerHMM_glimmerT_10540-T1
Valid prediction for snap_scaffold_4-snap.2547-T1
Valid prediction for GeneMark_model.17197_t
Valid prediction for GlimmerHMM_glimmerT_10533-T1
Valid prediction for GeneMark_model.17187_t
Valid prediction for Augustus_model.g6904.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 38473, rend_intergenic: 38470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13319, rend_intergenic: 7657  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16069, rend_intergenic: 16005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17999, rend_intergenic: 16705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27402, rend_intergenic: 22156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29466, rend_intergenic: 27763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35002, rend_intergenic: 31498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57209, rend_intergenic: 51656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89929, rend_intergenic: 87454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91125, rend_intergenic: 90917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94324, rend_intergenic: 91350  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122451, rend_intergenic: 99668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128109, rend_intergenic: 125205  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142878, rend_intergenic: 138906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155290, rend_intergenic: 152939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162368, rend_intergenic: 156057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170468, rend_intergenic: 162521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181504, rend_intergenic: 171505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 196608
-exon list size: 741


building trellis

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96.5    
96.6    
96.8    
96.9    
97.0    
97.2    
97.3    
97.4    
97.6    
97.7    
97.8    
98.0    
98.1    
98.3    
98.4    
98.5    
98.7    
98.8    
98.9    
99.1    
99.2    
99.3    
99.5    
99.6    
99.7    
99.9    
-found 46 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 38473, rend_intergenic: 38470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13319, rend_intergenic: 7657  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16069, rend_intergenic: 16005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17999, rend_intergenic: 16705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27402, rend_intergenic: 22156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29466, rend_intergenic: 27763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35002, rend_intergenic: 31498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57209, rend_intergenic: 51656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89929, rend_intergenic: 87454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91125, rend_intergenic: 90917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94324, rend_intergenic: 91350  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122451, rend_intergenic: 99668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128109, rend_intergenic: 125205  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142878, rend_intergenic: 138906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155290, rend_intergenic: 152939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162368, rend_intergenic: 156057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170468, rend_intergenic: 162521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181504, rend_intergenic: 171505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support