-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_20/scaffold_20_6777453-6955661

-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 Augustus_model.g31580.t1
Valid prediction for pasa_asmbl_25838.p1
Valid prediction for GlimmerHMM_glimmerT_47349-T1
Valid prediction for snap_scaffold_20-snap.1505-T1
Valid prediction for snap_scaffold_20-snap.1507-T1
Valid prediction for GeneMark_model.82744_t
Valid prediction for snap_scaffold_20-snap.1522-T1
Valid prediction for GlimmerHMM_glimmerT_47363-T1
Valid prediction for snap_scaffold_20-snap.1508-T1
Valid prediction for GlimmerHMM_glimmerT_47346-T1
Valid prediction for snap_scaffold_20-snap.1510-T1
Valid prediction for GeneMark_model.82737_t
Valid prediction for Augustus_model.g31582.t1
Valid prediction for GeneMark_model.82734_t
Valid prediction for GlimmerHMM_glimmerT_47355-T1
Valid prediction for GeneMark_model.82724_t
Valid prediction for snap_scaffold_20-snap.1529-T1
Valid prediction for GlimmerHMM_glimmerT_47374-T1
Valid prediction for snap_scaffold_20-snap.1520-T1
Valid prediction for GeneMark_model.82733_t
Valid prediction for GlimmerHMM_glimmerT_47352-T1
Valid prediction for GlimmerHMM_glimmerT_47358-T1
Valid prediction for Augustus_model.g31566.t1
Valid prediction for GeneMark_model.82715_t
Valid prediction for GeneMark_model.82739_t
Valid prediction for GlimmerHMM_glimmerT_47365-T1
Valid prediction for GlimmerHMM_glimmerT_47364-T1
Valid prediction for GeneMark_model.82722_t
Valid prediction for snap_scaffold_20-snap.1534-T1
Valid prediction for GeneMark_model.82731_t
Valid prediction for snap_scaffold_20-snap.1503-T1
Valid prediction for snap_scaffold_20-snap.1516-T1
Valid prediction for GeneMark_model.82726_t
Valid prediction for GlimmerHMM_glimmerT_47367-T1
Valid prediction for GlimmerHMM_glimmerT_47345-T1
Valid prediction for snap_scaffold_20-snap.1500-T1
Valid prediction for GlimmerHMM_glimmerT_47372-T1
Valid prediction for GeneMark_model.82738_t
Valid prediction for GlimmerHMM_glimmerT_47370-T1
Valid prediction for GlimmerHMM_glimmerT_47350-T1
Valid prediction for GlimmerHMM_glimmerT_47360-T1
Valid prediction for snap_scaffold_20-snap.1527-T1
Valid prediction for snap_scaffold_20-snap.1523-T1
Valid prediction for Augustus_model.g31576.t1
Valid prediction for Augustus_model.g31568.t1
Valid prediction for Augustus_model.g31575.t1
Valid prediction for GeneMark_model.82720_t
Valid prediction for snap_scaffold_20-snap.1535-T1
Valid prediction for GeneMark_model.82743_t
Valid prediction for GlimmerHMM_glimmerT_47369-T1
Valid prediction for snap_scaffold_20-snap.1515-T1
Valid prediction for GeneMark_model.82716_t
Valid prediction for snap_scaffold_20-snap.1531-T1
Valid prediction for Augustus_model.g31572.t1
Valid prediction for HiQ_model.g31579.t1
Valid prediction for GeneMark_model.82711_t
Valid prediction for GeneMark_model.82718_t
Valid prediction for snap_scaffold_20-snap.1498-T1
Valid prediction for snap_scaffold_20-snap.1524-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_30477-T1
Valid prediction for GeneMark_model.82713_t
Valid prediction for GeneMark_model.82736_t
Valid prediction for GeneMark_model.82728_t
Valid prediction for GlimmerHMM_glimmerT_47354-T1
Valid prediction for GeneMark_model.82741_t
Valid prediction for Augustus_model.g31570.t1
Valid prediction for Augustus_model.g31567.t1
Valid prediction for GeneMark_model.82709_t
Valid prediction for snap_scaffold_20-snap.1513-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_20-snap.1519-T1
Valid prediction for pasa_asmbl_26772.p2
Valid prediction for Augustus_model.g31578.t1
Valid prediction for GeneMark_model.82723_t
Valid prediction for snap_scaffold_20-snap.1506-T1
Valid prediction for snap_scaffold_20-snap.1512-T1
Valid prediction for GeneMark_model.82719_t
Valid prediction for snap_scaffold_20-snap.1536-T1
Valid prediction for snap_scaffold_20-snap.1517-T1
Valid prediction for GeneMark_model.82729_t
Valid prediction for snap_scaffold_20-snap.1502-T1
Valid prediction for GlimmerHMM_glimmerT_47356-T1
Valid prediction for GeneMark_model.82732_t
Valid prediction for GlimmerHMM_glimmerT_47362-T1
Valid prediction for snap_scaffold_20-snap.1532-T1
Valid prediction for Augustus_model.g31569.t1
Valid prediction for CodingQuarry_transcript_30479-T1
Valid prediction for GlimmerHMM_glimmerT_47344-T1
Valid prediction for GeneMark_model.82721_t
Valid prediction for GeneMark_model.82717_t
Valid prediction for GlimmerHMM_glimmerT_47347-T1
Valid prediction for GeneMark_model.82730_t
Valid prediction for snap_scaffold_20-snap.1499-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g31577.t1
Valid prediction for GeneMark_model.82742_t
Valid prediction for GlimmerHMM_glimmerT_47366-T1
Valid prediction for snap_scaffold_20-snap.1504-T1
Valid prediction for pasa_asmbl_26771.p1
Valid prediction for GlimmerHMM_glimmerT_47361-T1
Valid prediction for CodingQuarry_transcript_30478-T1
Valid prediction for GlimmerHMM_glimmerT_47359-T1
Valid prediction for Augustus_model.g31563.t1
Valid prediction for GlimmerHMM_glimmerT_47373-T1
Valid prediction for GeneMark_model.82740_t
Valid prediction for snap_scaffold_20-snap.1509-T1
Valid prediction for Augustus_model.g31564.t1
Valid prediction for GlimmerHMM_glimmerT_47371-T1
Valid prediction for Augustus_model.g31581.t1
Valid prediction for snap_scaffold_20-snap.1530-T1
Valid prediction for GlimmerHMM_glimmerT_47351-T1
Valid prediction for GeneMark_model.82710_t
Valid prediction for snap_scaffold_20-snap.1525-T1
Valid prediction for Augustus_model.g31571.t1
Valid prediction for GeneMark_model.82708_t
Valid prediction for snap_scaffold_20-snap.1511-T1
Valid prediction for snap_scaffold_20-snap.1533-T1
Valid prediction for GeneMark_model.82714_t
Valid prediction for GeneMark_model.82707_t
Valid prediction for snap_scaffold_20-snap.1528-T1
Valid prediction for GeneMark_model.82725_t
Valid prediction for snap_scaffold_20-snap.1537-T1
Valid prediction for GlimmerHMM_glimmerT_47348-T1
Valid prediction for GlimmerHMM_glimmerT_47375-T1
Valid prediction for GlimmerHMM_glimmerT_47343-T1
Valid prediction for Augustus_model.g31574.t1
Valid prediction for GlimmerHMM_glimmerT_47353-T1
Valid prediction for snap_scaffold_20-snap.1526-T1
Valid prediction for snap_scaffold_20-snap.1495-T1
Valid prediction for snap_scaffold_20-snap.1521-T1
Valid prediction for GeneMark_model.82712_t
Valid prediction for GlimmerHMM_glimmerT_47342-T1
Valid prediction for snap_scaffold_20-snap.1496-T1
Valid prediction for snap_scaffold_20-snap.1497-T1
Valid prediction for snap_scaffold_20-snap.1518-T1
Valid prediction for snap_scaffold_20-snap.1514-T1
Valid prediction for HiQ_model.g31583.t1
Valid prediction for snap_scaffold_20-snap.1501-T1
Valid prediction for GlimmerHMM_glimmerT_47357-T1
Valid prediction for GlimmerHMM_glimmerT_47368-T1
Valid prediction for Augustus_model.g31573.t1
Valid prediction for Augustus_model.g31565.t1
Valid prediction for GeneMark_model.82735_t
Valid prediction for GeneMark_model.82727_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 29877, rend_intergenic: 19433  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42947, rend_intergenic: 36877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54873, rend_intergenic: 49676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64176, rend_intergenic: 55452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73292, rend_intergenic: 71064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85654, rend_intergenic: 82424  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94525, rend_intergenic: 90615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99832, rend_intergenic: 95652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110976, rend_intergenic: 110108  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127291, rend_intergenic: 115742  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153233, rend_intergenic: 151157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156284, rend_intergenic: 153677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162441, rend_intergenic: 156610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 178209
-exon list size: 646


building trellis

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63.9    
64.0    
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84.9    
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86.1    
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87.0    
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88.0    
88.1    
88.3    
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88.9    
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90.0    
90.1    
90.3    
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90.7    
90.9    
91.0    
91.2    
91.4    
91.5    
91.7    
91.8    
92.0    
92.1    
92.3    
92.4    
92.6    
92.7    
92.9    
93.1    
93.2    
93.4    
93.5    
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93.8    
94.0    
94.1    
94.3    
94.4    
94.6    
94.8    
94.9    
95.1    
95.2    
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96.0    
96.1    
96.3    
96.5    
96.6    
96.8    
96.9    
97.1    
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97.8    
98.0    
98.1    
98.3    
98.5    
98.6    
98.8    
98.9    
99.1    
99.2    
99.4    
99.5    
99.7    
99.8    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 29877, rend_intergenic: 19433  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42947, rend_intergenic: 36877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54873, rend_intergenic: 49676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64176, rend_intergenic: 55452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73292, rend_intergenic: 71064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85654, rend_intergenic: 82424  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94525, rend_intergenic: 90615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99832, rend_intergenic: 95652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110976, rend_intergenic: 110108  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127291, rend_intergenic: 115742  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153233, rend_intergenic: 151157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156284, rend_intergenic: 153677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162441, rend_intergenic: 156610  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