-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_18/scaffold_18_5043497-5196179

-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_43280-T1
Valid prediction for snap_scaffold_18-snap.1048-T1
Couldn't classify 12901, 13144
Sorry, prediction pasa_asmbl_20607.p1 fails validation.
(GAA)	 CA	12901-13144	GT	AGG
(GCA)	 AG	15988-16304	GG	AGG
-recovered pasa_asmbl_20607.p1, terminal, 15988, 16304
Valid prediction for snap_scaffold_18-snap.1058-T1
Valid prediction for snap_scaffold_18-snap.1054-T1
Valid prediction for GlimmerHMM_glimmerT_43295-T1
Valid prediction for Augustus_model.g28958.t1
Valid prediction for snap_scaffold_18-snap.1037-T1
Valid prediction for GeneMark_model.74708_t
Valid prediction for Augustus_model.g28962.t1
Valid prediction for GlimmerHMM_glimmerT_43286-T1
Couldn't classify 7224, 7598
Sorry, prediction pasa_asmbl_20606.p1 fails validation.
(AAC)	 CC	7224-7598	GG	CAG
Valid prediction for HiQ_model.g28961.t1
Valid prediction for GeneMark_model.74698_t
Valid prediction for GeneMark_model.74699_t
Valid prediction for GlimmerHMM_glimmerT_43276-T1
Valid prediction for snap_scaffold_18-snap.1028-T1
Valid prediction for GeneMark_model.74711_t
Valid prediction for GeneMark_model.74717_t
Valid prediction for GeneMark_model.74710_t
Valid prediction for GlimmerHMM_glimmerT_43275-T1
Valid prediction for Augustus_model.g28949.t1
Valid prediction for snap_scaffold_18-snap.1051-T1
Valid prediction for pasa_asmbl_21120.p1
Valid prediction for snap_scaffold_18-snap.1060-T1
Valid prediction for GeneMark_model.74715_t
Valid prediction for GlimmerHMM_glimmerT_43294-T1
Valid prediction for snap_scaffold_18-snap.1049-T1
Valid prediction for GeneMark_model.74726_t
Valid prediction for snap_scaffold_18-snap.1050-T1
Valid prediction for GlimmerHMM_glimmerT_43291-T1
Valid prediction for GeneMark_model.74704_t
Valid prediction for GlimmerHMM_glimmerT_43283-T1
Valid prediction for snap_scaffold_18-snap.1047-T1
Valid prediction for GlimmerHMM_glimmerT_43289-T1
Valid prediction for CodingQuarry_transcript_23710-T1
Valid prediction for Augustus_model.g28957.t1
Valid prediction for GeneMark_model.74719_t
Valid prediction for GeneMark_model.74729_t
Valid prediction for snap_scaffold_18-snap.1031-T1
Valid prediction for GeneMark_model.74701_t
Valid prediction for GeneMark_model.74721_t
Valid prediction for snap_scaffold_18-snap.1030-T1
Valid prediction for GlimmerHMM_glimmerT_43278-T1
Valid prediction for GeneMark_model.74722_t
Valid prediction for GeneMark_model.74705_t
Valid prediction for GlimmerHMM_glimmerT_43288-T1
Valid prediction for snap_scaffold_18-snap.1041-T1
Valid prediction for GlimmerHMM_glimmerT_43296-T1
Valid prediction for Augustus_model.g28953.t1
Valid prediction for snap_scaffold_18-snap.1036-T1
Valid prediction for snap_scaffold_18-snap.1033-T1
Valid prediction for snap_scaffold_18-snap.1043-T1
Valid prediction for GeneMark_model.74713_t
Valid prediction for snap_scaffold_18-snap.1027-T1
Valid prediction for Augustus_model.g28950.t1
Valid prediction for snap_scaffold_18-snap.1040-T1
Valid prediction for snap_scaffold_18-snap.1045-T1
Valid prediction for Augustus_model.g28959.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 GeneMark_model.74703_t
Valid prediction for GeneMark_model.74728_t
Valid prediction for GlimmerHMM_glimmerT_43281-T1
Valid prediction for snap_scaffold_18-snap.1039-T1
Valid prediction for GlimmerHMM_glimmerT_43277-T1
Valid prediction for GeneMark_model.74730_t
Valid prediction for Augustus_model.g28960.t1
Valid prediction for GeneMark_model.74700_t
Valid prediction for snap_scaffold_18-snap.1038-T1
Valid prediction for GeneMark_model.74712_t
Valid prediction for snap_scaffold_18-snap.1055-T1
Valid prediction for GeneMark_model.74731_t
Valid prediction for GlimmerHMM_glimmerT_43297-T1
Valid prediction for GeneMark_model.74714_t
Valid prediction for GeneMark_model.74716_t
Valid prediction for snap_scaffold_18-snap.1034-T1
Valid prediction for GeneMark_model.74724_t
Valid prediction for snap_scaffold_18-snap.1053-T1
Valid prediction for snap_scaffold_18-snap.1059-T1
Valid prediction for GeneMark_model.74718_t
Valid prediction for GlimmerHMM_glimmerT_43298-T1
Valid prediction for snap_scaffold_18-snap.1032-T1
Valid prediction for snap_scaffold_18-snap.1046-T1
Valid prediction for Augustus_model.g28954.t1
Valid prediction for GeneMark_model.74723_t
Valid prediction for snap_scaffold_18-snap.1029-T1
Valid prediction for snap_scaffold_18-snap.1035-T1
Valid prediction for Augustus_model.g28963.t1
Valid prediction for GeneMark_model.74707_t
Valid prediction for GeneMark_model.74702_t
Valid prediction for snap_scaffold_18-snap.1061-T1
Valid prediction for snap_scaffold_18-snap.1057-T1
Valid prediction for GlimmerHMM_glimmerT_43285-T1
Valid prediction for GlimmerHMM_glimmerT_43284-T1
Valid prediction for GlimmerHMM_glimmerT_43299-T1
Valid prediction for snap_scaffold_18-snap.1056-T1
Valid prediction for snap_scaffold_18-snap.1044-T1
Valid prediction for GlimmerHMM_glimmerT_43282-T1
Valid prediction for Augustus_model.g28951.t1
Valid prediction for snap_scaffold_18-snap.1052-T1
Valid prediction for Augustus_model.g28955.t1
Valid prediction for GlimmerHMM_glimmerT_43290-T1
Valid prediction for snap_scaffold_18-snap.1042-T1
Valid prediction for GeneMark_model.74720_t
Valid prediction for GlimmerHMM_glimmerT_43293-T1
Valid prediction for GeneMark_model.74725_t
Valid prediction for Augustus_model.g28952.t1
Valid prediction for GeneMark_model.74727_t
Valid prediction for GeneMark_model.74732_t
Valid prediction for GlimmerHMM_glimmerT_43292-T1
Valid prediction for GlimmerHMM_glimmerT_43287-T1
Valid prediction for Augustus_model.g28956.t1
Valid prediction for GlimmerHMM_glimmerT_43279-T1
Valid prediction for GeneMark_model.74706_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7715, rend_intergenic: 7352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13496, rend_intergenic: 7790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48041, rend_intergenic: 45752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74457, rend_intergenic: 70520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97993, rend_intergenic: 97142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 152683
-exon list size: 459


building trellis

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38.8    
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40.6    
40.8    
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81.6    
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83.3    
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83.9    
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84.4    
84.6    
84.8    
85.0    
85.2    
85.5    
85.7    
85.9    
86.1    
86.3    
86.6    
86.8    
87.0    
87.2    
87.4    
87.6    
87.9    
88.1    
88.3    
88.5    
88.7    
88.9    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.5    
90.7    
90.9    
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91.3    
91.5    
91.8    
92.0    
92.2    
92.4    
92.6    
92.8    
93.1    
93.3    
93.5    
93.7    
93.9    
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94.4    
94.6    
94.8    
95.0    
95.2    
95.4    
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95.9    
96.1    
96.3    
96.5    
96.7    
97.0    
97.2    
97.4    
97.6    
97.8    
98.0    
98.3    
98.5    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 7715, rend_intergenic: 7352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13496, rend_intergenic: 7790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48041, rend_intergenic: 45752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74457, rend_intergenic: 70520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97993, rend_intergenic: 97142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

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