-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_13/scaffold_13_13385721-13605605

-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.57080_t
Valid prediction for GeneMark_model.57105_t
Valid prediction for GeneMark_model.57088_t
Valid prediction for Augustus_model.g22428.t1
Valid prediction for snap_scaffold_13-snap.2540-T1
Valid prediction for snap_scaffold_13-snap.2558-T1
Valid prediction for GeneMark_model.57076_t
Valid prediction for GeneMark_model.57090_t
Valid prediction for GeneMark_model.57070_t
Valid prediction for snap_scaffold_13-snap.2539-T1
Valid prediction for snap_scaffold_13-snap.2545-T1
Valid prediction for snap_scaffold_13-snap.2565-T1
Valid prediction for snap_scaffold_13-snap.2564-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33394-T1
Valid prediction for GeneMark_model.57086_t
Valid prediction for snap_scaffold_13-snap.2549-T1
Valid prediction for snap_scaffold_13-snap.2554-T1
Valid prediction for GlimmerHMM_glimmerT_33381-T1
Valid prediction for GeneMark_model.57103_t
Valid prediction for GlimmerHMM_glimmerT_33388-T1
Valid prediction for GeneMark_model.57114_t
Valid prediction for GeneMark_model.57135_t
Valid prediction for GlimmerHMM_glimmerT_33386-T1
Valid prediction for GlimmerHMM_glimmerT_33395-T1
Valid prediction for GeneMark_model.57095_t
Valid prediction for GeneMark_model.57093_t
Valid prediction for GeneMark_model.57078_t
Valid prediction for GeneMark_model.57111_t
Valid prediction for snap_scaffold_13-snap.2541-T1
Valid prediction for GeneMark_model.57127_t
Valid prediction for GeneMark_model.57100_t
Valid prediction for snap_scaffold_13-snap.2543-T1
Valid prediction for Augustus_model.g22429.t1
Valid prediction for GeneMark_model.57094_t
Valid prediction for snap_scaffold_13-snap.2571-T1
Valid prediction for GlimmerHMM_glimmerT_33375-T1
Valid prediction for Augustus_model.g22431.t1
Valid prediction for GeneMark_model.57071_t
Valid prediction for snap_scaffold_13-snap.2566-T1
Valid prediction for GeneMark_model.57116_t
Valid prediction for GlimmerHMM_glimmerT_33390-T1
Valid prediction for snap_scaffold_13-snap.2552-T1
Valid prediction for GeneMark_model.57091_t
Valid prediction for snap_scaffold_13-snap.2576-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.57108_t
Valid prediction for GlimmerHMM_glimmerT_33393-T1
Valid prediction for GeneMark_model.57129_t
Valid prediction for GlimmerHMM_glimmerT_33372-T1
Valid prediction for GeneMark_model.57097_t
Valid prediction for snap_scaffold_13-snap.2572-T1
Valid prediction for GeneMark_model.57081_t
Valid prediction for snap_scaffold_13-snap.2574-T1
Valid prediction for GeneMark_model.57125_t
Valid prediction for snap_scaffold_13-snap.2551-T1
Valid prediction for GeneMark_model.57131_t
Valid prediction for GeneMark_model.57073_t
Valid prediction for GeneMark_model.57083_t
Valid prediction for GeneMark_model.57123_t
Valid prediction for Augustus_model.g22430.t1
Valid prediction for GeneMark_model.57068_t
Valid prediction for snap_scaffold_13-snap.2559-T1
Valid prediction for GlimmerHMM_glimmerT_33382-T1
Valid prediction for snap_scaffold_13-snap.2547-T1
Valid prediction for snap_scaffold_13-snap.2573-T1
Valid prediction for GeneMark_model.57118_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.57134_t
Valid prediction for GeneMark_model.57119_t
Valid prediction for GeneMark_model.57102_t
Valid prediction for GeneMark_model.57113_t
Valid prediction for Augustus_model.g22426.t1
Valid prediction for GlimmerHMM_glimmerT_33385-T1
Valid prediction for GlimmerHMM_glimmerT_33392-T1
Valid prediction for GeneMark_model.57128_t
Valid prediction for GlimmerHMM_glimmerT_33374-T1
Valid prediction for GlimmerHMM_glimmerT_33373-T1
Valid prediction for GeneMark_model.57084_t
Valid prediction for GeneMark_model.57075_t
Valid prediction for GlimmerHMM_glimmerT_33387-T1
Valid prediction for GeneMark_model.57132_t
Valid prediction for snap_scaffold_13-snap.2577-T1
Valid prediction for Augustus_model.g22425.t1
Valid prediction for GlimmerHMM_glimmerT_33389-T1
Valid prediction for GeneMark_model.57115_t
Valid prediction for GeneMark_model.57112_t
Valid prediction for snap_scaffold_13-snap.2553-T1
Valid prediction for GeneMark_model.57085_t
Valid prediction for GeneMark_model.57092_t
Valid prediction for GlimmerHMM_glimmerT_33376-T1
Valid prediction for GeneMark_model.57069_t
Valid prediction for GeneMark_model.57121_t
Valid prediction for snap_scaffold_13-snap.2575-T1
Valid prediction for GeneMark_model.57074_t
Valid prediction for GeneMark_model.57109_t
Valid prediction for snap_scaffold_13-snap.2568-T1
Valid prediction for pasa_asmbl_10114.p1
Valid prediction for snap_scaffold_13-snap.2548-T1
Valid prediction for snap_scaffold_13-snap.2578-T1
Valid prediction for GeneMark_model.57120_t
Valid prediction for snap_scaffold_13-snap.2550-T1
Valid prediction for GeneMark_model.57124_t
Valid prediction for GeneMark_model.57072_t
Valid prediction for GeneMark_model.57104_t
Valid prediction for snap_scaffold_13-snap.2569-T1
Valid prediction for GeneMark_model.57079_t
Valid prediction for GlimmerHMM_glimmerT_33384-T1
Valid prediction for snap_scaffold_13-snap.2561-T1
Valid prediction for GeneMark_model.57099_t
Valid prediction for snap_scaffold_13-snap.2579-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GeneMark_model.57098_t
Valid prediction for GeneMark_model.57133_t
Valid prediction for GeneMark_model.57126_t
Valid prediction for GeneMark_model.57117_t
Valid prediction for snap_scaffold_13-snap.2560-T1
Valid prediction for CodingQuarry_transcript_13251-T1
Valid prediction for snap_scaffold_13-snap.2556-T1
Valid prediction for GeneMark_model.57082_t
Valid prediction for GeneMark_model.57110_t
Valid prediction for GeneMark_model.57106_t
Valid prediction for GlimmerHMM_glimmerT_33377-T1
Valid prediction for snap_scaffold_13-snap.2567-T1
Valid prediction for snap_scaffold_13-snap.2557-T1
Valid prediction for GlimmerHMM_glimmerT_33379-T1
Valid prediction for snap_scaffold_13-snap.2542-T1
Valid prediction for Augustus_model.g22424.t1
Valid prediction for GlimmerHMM_glimmerT_33380-T1
Valid prediction for snap_scaffold_13-snap.2555-T1
Valid prediction for GeneMark_model.57130_t
Valid prediction for snap_scaffold_13-snap.2570-T1
Valid prediction for GlimmerHMM_glimmerT_33383-T1
Valid prediction for GeneMark_model.57107_t
Valid prediction for snap_scaffold_13-snap.2562-T1
Valid prediction for GeneMark_model.57077_t
Valid prediction for snap_scaffold_13-snap.2563-T1
Valid prediction for GlimmerHMM_glimmerT_33378-T1
Valid prediction for GeneMark_model.57122_t
Valid prediction for snap_scaffold_13-snap.2544-T1
Valid prediction for GeneMark_model.57089_t
Valid prediction for snap_scaffold_13-snap.2546-T1
Valid prediction for GeneMark_model.57096_t
Valid prediction for GlimmerHMM_glimmerT_33391-T1
Valid prediction for GeneMark_model.57101_t
Valid prediction for HiQ_model.g22427.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16149, rend_intergenic: 13662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25592, rend_intergenic: 25290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26998, rend_intergenic: 25683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33769, rend_intergenic: 27243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37112, rend_intergenic: 34451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49389, rend_intergenic: 37229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51013, rend_intergenic: 50809  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54221, rend_intergenic: 51115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81201, rend_intergenic: 66106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85027, rend_intergenic: 82910  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99041, rend_intergenic: 87366  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128133, rend_intergenic: 110714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140476, rend_intergenic: 133396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159112, rend_intergenic: 148457  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185020, rend_intergenic: 167504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 217301, rend_intergenic: 191825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 219885
-exon list size: 924


building trellis

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83.3    
83.4    
83.5    
83.6    
83.7    
83.8    
83.9    
84.0    
84.1    
84.2    
84.3    
84.4    
84.6    
84.7    
84.8    
84.9    
85.0    
85.1    
85.2    
85.3    
85.4    
85.5    
85.6    
85.7    
85.9    
86.0    
86.1    
86.2    
86.3    
86.4    
86.5    
86.6    
86.7    
86.8    
86.9    
87.0    
87.1    
87.3    
87.4    
87.5    
87.6    
87.7    
87.8    
87.9    
88.0    
88.1    
88.2    
88.3    
88.4    
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    
90.0    
90.1    
90.2    
90.3    
90.4    
90.5    
90.6    
90.7    
90.8    
90.9    
91.0    
91.1    
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    
92.7    
92.8    
92.9    
93.0    
93.1    
93.2    
93.3    
93.4    
93.5    
93.6    
93.7    
93.8    
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    
95.4    
95.5    
95.6    
95.7    
95.8    
95.9    
96.0    
96.1    
96.2    
96.3    
96.4    
96.5    
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    
98.1    
98.2    
98.3    
98.4    
98.5    
98.6    
98.7    
98.8    
98.9    
99.0    
99.1    
99.2    
99.4    
99.5    
99.6    
99.7    
99.8    
99.9    
-found 44 predictions from path traversal
Error with prediction: snap lend_intergenic: 16149, rend_intergenic: 13662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25592, rend_intergenic: 25290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26998, rend_intergenic: 25683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33769, rend_intergenic: 27243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37112, rend_intergenic: 34451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49389, rend_intergenic: 37229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51013, rend_intergenic: 50809  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54221, rend_intergenic: 51115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81201, rend_intergenic: 66106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85027, rend_intergenic: 82910  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99041, rend_intergenic: 87366  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128133, rend_intergenic: 110714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140476, rend_intergenic: 133396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159112, rend_intergenic: 148457  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185020, rend_intergenic: 167504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 217301, rend_intergenic: 191825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support