-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_2829432-3028477

-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 snap_scaffold_18-snap.616-T1
Valid prediction for snap_scaffold_18-snap.596-T1
Valid prediction for GlimmerHMM_glimmerT_41972-T1
Couldn't classify 13878, 14366
Sorry, prediction pasa_asmbl_20431.p1 fails validation.
(ATG)	 TC	13878-14366	AA	AGA
Valid prediction for GlimmerHMM_glimmerT_41960-T1
Valid prediction for Augustus_model.g27951.t1
Valid prediction for GlimmerHMM_glimmerT_41970-T1
Valid prediction for GlimmerHMM_glimmerT_41957-T1
Valid prediction for snap_scaffold_18-snap.609-T1
Valid prediction for GlimmerHMM_glimmerT_41962-T1
Valid prediction for Augustus_model.g27949.t1
Valid prediction for snap_scaffold_18-snap.595-T1
Valid prediction for snap_scaffold_18-snap.603-T1
Valid prediction for snap_scaffold_18-snap.582-T1
Valid prediction for snap_scaffold_18-snap.592-T1
Valid prediction for Augustus_model.g27944.t1
Valid prediction for snap_scaffold_18-snap.600-T1
Valid prediction for Augustus_model.g27941.t1
Valid prediction for GlimmerHMM_glimmerT_41976-T1
Valid prediction for Augustus_model.g27948.t1
Valid prediction for Augustus_model.g27947.t1
Valid prediction for snap_scaffold_18-snap.613-T1
Valid prediction for snap_scaffold_18-snap.593-T1
Valid prediction for CodingQuarry_transcript_23703-T1
Valid prediction for snap_scaffold_18-snap.606-T1
Valid prediction for Augustus_model.g27943.t1
Valid prediction for snap_scaffold_18-snap.586-T1
Valid prediction for GlimmerHMM_glimmerT_41965-T1
Valid prediction for snap_scaffold_18-snap.588-T1
Valid prediction for snap_scaffold_18-snap.608-T1
Valid prediction for GlimmerHMM_glimmerT_41955-T1
Valid prediction for snap_scaffold_18-snap.598-T1
Valid prediction for Augustus_model.g27950.t1
Couldn't classify 51137, 51259
Sorry, prediction pasa_asmbl_20432.p1 fails validation.
(AGC)	 GC	51137-51259	GT	AGG
(GAG)	 AG	52363-52467	GT	GAG
(GAC)	 AG	55278-55364	AA	AGA
-recovered pasa_asmbl_20432.p1, terminal, 55278, 55364
-recovered pasa_asmbl_20432.p1, internal, 52363, 52467
Valid prediction for GlimmerHMM_glimmerT_41966-T1
Valid prediction for HiQ_model.g27952.t1
Valid prediction for snap_scaffold_18-snap.610-T1
Valid prediction for snap_scaffold_18-snap.584-T1
Valid prediction for snap_scaffold_18-snap.615-T1
Valid prediction for snap_scaffold_18-snap.607-T1
Valid prediction for snap_scaffold_18-snap.590-T1
Valid prediction for snap_scaffold_18-snap.589-T1
Valid prediction for Augustus_model.g27945.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_18-snap.614-T1
Valid prediction for GlimmerHMM_glimmerT_41968-T1
Couldn't classify 132914, 133019
Sorry, prediction Augustus_model.g27946.t1 fails validation.
(ATG)	 GG	132644-132682	GT	AGG
(AGG)	 AG	132914-133019	GT	AGG
-recovered Augustus_model.g27946.t1, initial, 132644, 132682
-recovered Augustus_model.g27946.t1, internal, 132914, 133019
Valid prediction for Augustus_model.g27942.t1
Valid prediction for GlimmerHMM_glimmerT_41959-T1
Valid prediction for snap_scaffold_18-snap.585-T1
Valid prediction for snap_scaffold_18-snap.602-T1
Valid prediction for snap_scaffold_18-snap.599-T1
Valid prediction for snap_scaffold_18-snap.611-T1
Valid prediction for snap_scaffold_18-snap.597-T1
Valid prediction for GlimmerHMM_glimmerT_41975-T1
Valid prediction for GlimmerHMM_glimmerT_41971-T1
Valid prediction for GlimmerHMM_glimmerT_41958-T1
Valid prediction for Augustus_model.g27940.t1
Valid prediction for snap_scaffold_18-snap.591-T1
Valid prediction for GlimmerHMM_glimmerT_41974-T1
Valid prediction for GlimmerHMM_glimmerT_41964-T1
Valid prediction for GlimmerHMM_glimmerT_41973-T1
Valid prediction for snap_scaffold_18-snap.604-T1
Valid prediction for snap_scaffold_18-snap.594-T1
Valid prediction for GlimmerHMM_glimmerT_41969-T1
Valid prediction for snap_scaffold_18-snap.583-T1
Valid prediction for GlimmerHMM_glimmerT_41967-T1
Valid prediction for snap_scaffold_18-snap.601-T1
Valid prediction for snap_scaffold_18-snap.605-T1
Valid prediction for GlimmerHMM_glimmerT_41963-T1
Valid prediction for snap_scaffold_18-snap.587-T1
Valid prediction for GlimmerHMM_glimmerT_41961-T1
Valid prediction for snap_scaffold_18-snap.612-T1
Valid prediction for GlimmerHMM_glimmerT_41956-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11323, rend_intergenic: 9527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73264, rend_intergenic: 68759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84986, rend_intergenic: 80042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140063, rend_intergenic: 130824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147864, rend_intergenic: 142115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179003, rend_intergenic: 173581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189010, rend_intergenic: 186796  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199046
-exon list size: 218


building trellis

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60.9    
61.4    
61.8    
62.3    
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63.2    
63.6    
64.1    
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65.5    
65.9    
66.4    
66.8    
67.3    
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68.2    
68.6    
69.1    
69.5    
70.0    
70.5    
70.9    
71.4    
71.8    
72.3    
72.7    
73.2    
73.6    
74.1    
74.5    
75.0    
75.5    
75.9    
76.4    
76.8    
77.3    
77.7    
78.2    
78.6    
79.1    
79.5    
80.0    
80.5    
80.9    
81.4    
81.8    
82.3    
82.7    
83.2    
83.6    
84.1    
84.5    
85.0    
85.5    
85.9    
86.4    
86.8    
87.3    
87.7    
88.2    
88.6    
89.1    
89.5    
90.0    
90.5    
90.9    
91.4    
91.8    
92.3    
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93.2    
93.6    
94.1    
94.5    
95.0    
95.5    
95.9    
96.4    
96.8    
97.3    
97.7    
98.2    
98.6    
99.1    
99.5    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 11323, rend_intergenic: 9527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73264, rend_intergenic: 68759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84986, rend_intergenic: 80042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140063, rend_intergenic: 130824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147864, rend_intergenic: 142115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179003, rend_intergenic: 173581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189010, rend_intergenic: 186796  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