-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_9/scaffold_9_7317234-7490289

-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 GlimmerHMM_glimmerT_22939-T1
Valid prediction for GlimmerHMM_glimmerT_22945-T1
Valid prediction for GlimmerHMM_glimmerT_22950-T1
Valid prediction for GeneMark_model.39336_t
Valid prediction for snap_scaffold_9-snap.1561-T1
Valid prediction for GlimmerHMM_glimmerT_22932-T1
Valid prediction for GlimmerHMM_glimmerT_22953-T1
Valid prediction for Augustus_model.g15350.t1
Valid prediction for GlimmerHMM_glimmerT_22929-T1
Valid prediction for snap_scaffold_9-snap.1572-T1
Valid prediction for snap_scaffold_9-snap.1538-T1
Valid prediction for Augustus_model.g15347.t1
Valid prediction for Augustus_model.g15360.t1
Valid prediction for GeneMark_model.39371_t
Valid prediction for GeneMark_model.39341_t
Valid prediction for Augustus_model.g15354.t1
Valid prediction for snap_scaffold_9-snap.1559-T1
Valid prediction for Augustus_model.g15341.t1
Valid prediction for GlimmerHMM_glimmerT_22954-T1
Valid prediction for snap_scaffold_9-snap.1571-T1
Valid prediction for snap_scaffold_9-snap.1551-T1
Valid prediction for GlimmerHMM_glimmerT_22942-T1
Valid prediction for snap_scaffold_9-snap.1576-T1
Valid prediction for GeneMark_model.39330_t
Valid prediction for snap_scaffold_9-snap.1540-T1
Valid prediction for snap_scaffold_9-snap.1536-T1
Valid prediction for snap_scaffold_9-snap.1548-T1
Valid prediction for GlimmerHMM_glimmerT_22941-T1
Valid prediction for GlimmerHMM_glimmerT_22956-T1
Valid prediction for GeneMark_model.39345_t
Valid prediction for snap_scaffold_9-snap.1535-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_22948-T1
Valid prediction for GlimmerHMM_glimmerT_22937-T1
Valid prediction for GlimmerHMM_glimmerT_22938-T1
Valid prediction for GeneMark_model.39357_t
Valid prediction for GeneMark_model.39353_t
Valid prediction for GlimmerHMM_glimmerT_22951-T1
Valid prediction for snap_scaffold_9-snap.1552-T1
Valid prediction for GlimmerHMM_glimmerT_22935-T1
Valid prediction for GlimmerHMM_glimmerT_22934-T1
Valid prediction for snap_scaffold_9-snap.1578-T1
Valid prediction for GeneMark_model.39343_t
Valid prediction for GeneMark_model.39362_t
Valid prediction for Augustus_model.g15361.t1
Valid prediction for Augustus_model.g15358.t1
Valid prediction for snap_scaffold_9-snap.1581-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GeneMark_model.39367_t
Valid prediction for GeneMark_model.39363_t
Valid prediction for snap_scaffold_9-snap.1563-T1
Valid prediction for snap_scaffold_9-snap.1568-T1
Valid prediction for GeneMark_model.39333_t
Valid prediction for snap_scaffold_9-snap.1574-T1
Valid prediction for GlimmerHMM_glimmerT_22944-T1
Valid prediction for GeneMark_model.39361_t
Valid prediction for GeneMark_model.39373_t
Valid prediction for snap_scaffold_9-snap.1569-T1
Valid prediction for GeneMark_model.39358_t
Valid prediction for GlimmerHMM_glimmerT_22943-T1
Valid prediction for snap_scaffold_9-snap.1580-T1
Valid prediction for snap_scaffold_9-snap.1543-T1
Valid prediction for Augustus_model.g15353.t1
Valid prediction for Augustus_model.g15349.t1
Valid prediction for snap_scaffold_9-snap.1555-T1
Valid prediction for snap_scaffold_9-snap.1564-T1
Valid prediction for snap_scaffold_9-snap.1566-T1
Valid prediction for GeneMark_model.39359_t
Valid prediction for GeneMark_model.39335_t
Valid prediction for GeneMark_model.39377_t
Valid prediction for GeneMark_model.39337_t
Valid prediction for snap_scaffold_9-snap.1542-T1
Valid prediction for GlimmerHMM_glimmerT_22940-T1
Valid prediction for GeneMark_model.39349_t
Valid prediction for GeneMark_model.39368_t
Valid prediction for GeneMark_model.39351_t
Valid prediction for GeneMark_model.39372_t
Valid prediction for GeneMark_model.39365_t
Valid prediction for GeneMark_model.39346_t
Valid prediction for snap_scaffold_9-snap.1545-T1
Valid prediction for GeneMark_model.39355_t
Valid prediction for GeneMark_model.39329_t
Valid prediction for GlimmerHMM_glimmerT_22949-T1
Valid prediction for GlimmerHMM_glimmerT_22926-T1
Valid prediction for GeneMark_model.39375_t
Valid prediction for snap_scaffold_9-snap.1557-T1
Valid prediction for GlimmerHMM_glimmerT_22955-T1
Valid prediction for Augustus_model.g15356.t1
Valid prediction for Augustus_model.g15352.t1
Valid prediction for snap_scaffold_9-snap.1558-T1
Valid prediction for GeneMark_model.39348_t
Valid prediction for GlimmerHMM_glimmerT_22931-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_9-snap.1550-T1
Valid prediction for Augustus_model.g15351.t1
Valid prediction for Augustus_model.g15340.t1
Valid prediction for Augustus_model.g15345.t1
Valid prediction for snap_scaffold_9-snap.1570-T1
Valid prediction for snap_scaffold_9-snap.1532-T1
Valid prediction for Augustus_model.g15342.t1
Valid prediction for GeneMark_model.39356_t
Valid prediction for snap_scaffold_9-snap.1546-T1
Valid prediction for snap_scaffold_9-snap.1579-T1
Valid prediction for GeneMark_model.39350_t
Valid prediction for snap_scaffold_9-snap.1575-T1
Valid prediction for snap_scaffold_9-snap.1544-T1
Valid prediction for snap_scaffold_9-snap.1560-T1
Valid prediction for snap_scaffold_9-snap.1573-T1
Valid prediction for GeneMark_model.39374_t
Valid prediction for snap_scaffold_9-snap.1533-T1
Valid prediction for snap_scaffold_9-snap.1565-T1
Valid prediction for GlimmerHMM_glimmerT_22936-T1
Valid prediction for snap_scaffold_9-snap.1554-T1
Valid prediction for GlimmerHMM_glimmerT_22928-T1
Valid prediction for GeneMark_model.39354_t
Valid prediction for GlimmerHMM_glimmerT_22927-T1
Valid prediction for snap_scaffold_9-snap.1577-T1
Valid prediction for GeneMark_model.39376_t
Valid prediction for GlimmerHMM_glimmerT_22933-T1
Valid prediction for Augustus_model.g15348.t1
Valid prediction for snap_scaffold_9-snap.1541-T1
Valid prediction for snap_scaffold_9-snap.1567-T1
Valid prediction for GeneMark_model.39339_t
Valid prediction for snap_scaffold_9-snap.1547-T1
Valid prediction for snap_scaffold_9-snap.1556-T1
Valid prediction for GeneMark_model.39340_t
Valid prediction for GeneMark_model.39334_t
Valid prediction for Augustus_model.g15346.t1
Valid prediction for Augustus_model.g15359.t1
Valid prediction for Augustus_model.g15357.t1
Valid prediction for GeneMark_model.39338_t
Valid prediction for GeneMark_model.39352_t
Valid prediction for GeneMark_model.39342_t
Valid prediction for GeneMark_model.39364_t
Valid prediction for snap_scaffold_9-snap.1534-T1
Valid prediction for GeneMark_model.39331_t
Valid prediction for GeneMark_model.39366_t
Valid prediction for snap_scaffold_9-snap.1539-T1
Valid prediction for GlimmerHMM_glimmerT_22952-T1
Valid prediction for GeneMark_model.39369_t
Valid prediction for snap_scaffold_9-snap.1553-T1
Valid prediction for snap_scaffold_9-snap.1549-T1
Valid prediction for GeneMark_model.39328_t
Valid prediction for GlimmerHMM_glimmerT_22947-T1
Valid prediction for Augustus_model.g15344.t1
Valid prediction for snap_scaffold_9-snap.1562-T1
Valid prediction for GlimmerHMM_glimmerT_22925-T1
Valid prediction for GeneMark_model.39344_t
Valid prediction for GeneMark_model.39332_t
Valid prediction for GlimmerHMM_glimmerT_22930-T1
Valid prediction for GlimmerHMM_glimmerT_22946-T1
Valid prediction for GeneMark_model.39360_t
Valid prediction for Augustus_model.g15343.t1
Valid prediction for GeneMark_model.39370_t
Valid prediction for snap_scaffold_9-snap.1537-T1
Valid prediction for GlimmerHMM_glimmerT_22924-T1
Valid prediction for GeneMark_model.39347_t
Valid prediction for Augustus_model.g15355.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21364, rend_intergenic: 12679  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24708, rend_intergenic: 23034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28060, rend_intergenic: 27658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34389, rend_intergenic: 28305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46953, rend_intergenic: 35823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55423, rend_intergenic: 51535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61320, rend_intergenic: 59931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64820, rend_intergenic: 61401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78554, rend_intergenic: 66390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96515, rend_intergenic: 84772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100207, rend_intergenic: 96629  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101600, rend_intergenic: 100692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104222, rend_intergenic: 101832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106384, rend_intergenic: 104527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110495, rend_intergenic: 106862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118325, rend_intergenic: 111151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128732, rend_intergenic: 124119  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137023, rend_intergenic: 128919  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143203, rend_intergenic: 137989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143857, rend_intergenic: 143628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149355, rend_intergenic: 146057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152152, rend_intergenic: 149881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159058, rend_intergenic: 153254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160462, rend_intergenic: 159740  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161966, rend_intergenic: 160640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164297, rend_intergenic: 162159  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 173056
-exon list size: 829


building trellis

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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    
79.1    
79.2    
79.3    
79.4    
79.5    
79.7    
79.8    
79.9    
80.0    
80.1    
80.3    
80.4    
80.5    
80.6    
80.7    
80.9    
81.0    
81.1    
81.2    
81.3    
81.5    
81.6    
81.7    
81.8    
81.9    
82.1    
82.2    
82.3    
82.4    
82.6    
82.7    
82.8    
82.9    
83.0    
83.2    
83.3    
83.4    
83.5    
83.6    
83.8    
83.9    
84.0    
84.1    
84.2    
84.4    
84.5    
84.6    
84.7    
84.8    
85.0    
85.1    
85.2    
85.3    
85.4    
85.6    
85.7    
85.8    
85.9    
86.0    
86.2    
86.3    
86.4    
86.5    
86.6    
86.8    
86.9    
87.0    
87.1    
87.2    
87.4    
87.5    
87.6    
87.7    
87.8    
88.0    
88.1    
88.2    
88.3    
88.4    
88.6    
88.7    
88.8    
88.9    
89.0    
89.2    
89.3    
89.4    
89.5    
89.7    
89.8    
89.9    
90.0    
90.1    
90.3    
90.4    
90.5    
90.6    
90.7    
90.9    
91.0    
91.1    
91.2    
91.3    
91.5    
91.6    
91.7    
91.8    
91.9    
92.1    
92.2    
92.3    
92.4    
92.5    
92.7    
92.8    
92.9    
93.0    
93.1    
93.3    
93.4    
93.5    
93.6    
93.7    
93.9    
94.0    
94.1    
94.2    
94.3    
94.5    
94.6    
94.7    
94.8    
94.9    
95.1    
95.2    
95.3    
95.4    
95.5    
95.7    
95.8    
95.9    
96.0    
96.1    
96.3    
96.4    
96.5    
96.6    
96.8    
96.9    
97.0    
97.1    
97.2    
97.4    
97.5    
97.6    
97.7    
97.8    
98.0    
98.1    
98.2    
98.3    
98.4    
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 43 predictions from path traversal
Error with prediction: snap lend_intergenic: 21364, rend_intergenic: 12679  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24708, rend_intergenic: 23034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28060, rend_intergenic: 27658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34389, rend_intergenic: 28305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46953, rend_intergenic: 35823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55423, rend_intergenic: 51535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61320, rend_intergenic: 59931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64820, rend_intergenic: 61401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78554, rend_intergenic: 66390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96515, rend_intergenic: 84772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100207, rend_intergenic: 96629  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101600, rend_intergenic: 100692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104222, rend_intergenic: 101832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106384, rend_intergenic: 104527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110495, rend_intergenic: 106862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118325, rend_intergenic: 111151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128732, rend_intergenic: 124119  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137023, rend_intergenic: 128919  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143203, rend_intergenic: 137989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143857, rend_intergenic: 143628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149355, rend_intergenic: 146057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152152, rend_intergenic: 149881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159058, rend_intergenic: 153254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160462, rend_intergenic: 159740  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161966, rend_intergenic: 160640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164297, rend_intergenic: 162159  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