-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_10/scaffold_10_14434133-14613577

-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_10-snap.2918-T1
Valid prediction for snap_scaffold_10-snap.2902-T1
Valid prediction for snap_scaffold_10-snap.2907-T1
Valid prediction for GlimmerHMM_glimmerT_26409-T1
Valid prediction for snap_scaffold_10-snap.2926-T1
Valid prediction for GlimmerHMM_glimmerT_26407-T1
Valid prediction for GeneMark_model.45297_t
Valid prediction for GlimmerHMM_glimmerT_26377-T1
Valid prediction for snap_scaffold_10-snap.2888-T1
Valid prediction for GlimmerHMM_glimmerT_26382-T1
Valid prediction for Augustus_model.g17707.t1
Valid prediction for GeneMark_model.45348_t
Valid prediction for snap_scaffold_10-snap.2925-T1
Valid prediction for Augustus_model.g17702.t1
Valid prediction for Augustus_model.g17703.t1
Valid prediction for GlimmerHMM_glimmerT_26381-T1
Valid prediction for snap_scaffold_10-snap.2900-T1
Valid prediction for GeneMark_model.45299_t
Valid prediction for snap_scaffold_10-snap.2931-T1
Valid prediction for GeneMark_model.45295_t
Valid prediction for GeneMark_model.45340_t
Valid prediction for GlimmerHMM_glimmerT_26406-T1
Valid prediction for GeneMark_model.45321_t
Valid prediction for GeneMark_model.45319_t
Valid prediction for snap_scaffold_10-snap.2893-T1
Valid prediction for GeneMark_model.45332_t
Valid prediction for GeneMark_model.45351_t
Valid prediction for snap_scaffold_10-snap.2896-T1
Valid prediction for GlimmerHMM_glimmerT_26400-T1
Valid prediction for GeneMark_model.45325_t
Valid prediction for GlimmerHMM_glimmerT_26393-T1
Valid prediction for GeneMark_model.45306_t
Valid prediction for GeneMark_model.45313_t
Valid prediction for GlimmerHMM_glimmerT_26388-T1
Valid prediction for GeneMark_model.45346_t
Valid prediction for GeneMark_model.45323_t
Valid prediction for snap_scaffold_10-snap.2906-T1
Valid prediction for Augustus_model.g17705.t1
Valid prediction for GeneMark_model.45343_t
Valid prediction for GlimmerHMM_glimmerT_26384-T1
Valid prediction for GeneMark_model.45316_t
Valid prediction for GlimmerHMM_glimmerT_26386-T1
Valid prediction for snap_scaffold_10-snap.2894-T1
Valid prediction for GeneMark_model.45327_t
Valid prediction for snap_scaffold_10-snap.2908-T1
Valid prediction for GeneMark_model.45302_t
Valid prediction for snap_scaffold_10-snap.2914-T1
Valid prediction for snap_scaffold_10-snap.2890-T1
Valid prediction for GeneMark_model.45311_t
Valid prediction for GeneMark_model.45317_t
Valid prediction for GlimmerHMM_glimmerT_26380-T1
Valid prediction for snap_scaffold_10-snap.2930-T1
Valid prediction for GeneMark_model.45308_t
Valid prediction for GlimmerHMM_glimmerT_26398-T1
Valid prediction for Augustus_model.g17704.t1
Valid prediction for GlimmerHMM_glimmerT_26395-T1
Valid prediction for GeneMark_model.45301_t
Valid prediction for snap_scaffold_10-snap.2897-T1
Valid prediction for GlimmerHMM_glimmerT_26397-T1
Valid prediction for GeneMark_model.45344_t
Valid prediction for GlimmerHMM_glimmerT_26379-T1
Valid prediction for GeneMark_model.45334_t
Valid prediction for Augustus_model.g17706.t1
Valid prediction for snap_scaffold_10-snap.2909-T1
Valid prediction for snap_scaffold_10-snap.2904-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GeneMark_model.45329_t
Valid prediction for GeneMark_model.45303_t
Valid prediction for GeneMark_model.45320_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.45336_t
Valid prediction for GeneMark_model.45349_t
Valid prediction for pasa_asmbl_3848.p1
Valid prediction for GeneMark_model.45304_t
Valid prediction for GeneMark_model.45312_t
Valid prediction for Augustus_model.g17701.t1
Valid prediction for GlimmerHMM_glimmerT_26404-T1
Valid prediction for GlimmerHMM_glimmerT_26405-T1
Valid prediction for snap_scaffold_10-snap.2928-T1
Valid prediction for snap_scaffold_10-snap.2903-T1
Valid prediction for CodingQuarry_transcript_5637-T1
Valid prediction for GeneMark_model.45352_t
Valid prediction for GeneMark_model.45318_t
Valid prediction for GeneMark_model.45347_t
Valid prediction for GlimmerHMM_glimmerT_26394-T1
Valid prediction for GeneMark_model.45305_t
Valid prediction for GlimmerHMM_glimmerT_26391-T1
Valid prediction for snap_scaffold_10-snap.2910-T1
Valid prediction for GeneMark_model.45298_t
Valid prediction for GeneMark_model.45345_t
Valid prediction for GeneMark_model.45330_t
Valid prediction for GeneMark_model.45300_t
Valid prediction for GeneMark_model.45335_t
Valid prediction for GeneMark_model.45315_t
Valid prediction for GeneMark_model.45338_t
Valid prediction for snap_scaffold_10-snap.2917-T1
Valid prediction for Augustus_model.g17711.t1
Valid prediction for GeneMark_model.45342_t
Valid prediction for snap_scaffold_10-snap.2921-T1
Valid prediction for snap_scaffold_10-snap.2898-T1
Valid prediction for snap_scaffold_10-snap.2892-T1
Valid prediction for GeneMark_model.45341_t
Valid prediction for snap_scaffold_10-snap.2923-T1
Valid prediction for GeneMark_model.45331_t
Couldn't classify 63990, 64177
Sorry, prediction pasa_asmbl_3849.p1 fails validation.
(ATG)	 CG	62590-62829	GT	AGG
(GTT)	 AG	62992-63166	GT	CGG
(ATC)	 AG	63280-63309	GT	AGG
(GCA)	 AG	63990-64177	AG	CCA
-recovered pasa_asmbl_3849.p1, initial, 62590, 62829
-recovered pasa_asmbl_3849.p1, internal, 62992, 63166
-recovered pasa_asmbl_3849.p1, internal, 63280, 63309
Valid prediction for Augustus_model.g17709.t1
Valid prediction for GlimmerHMM_glimmerT_26383-T1
Valid prediction for GeneMark_model.45337_t
Valid prediction for GeneMark_model.45309_t
Valid prediction for GlimmerHMM_glimmerT_26408-T1
Valid prediction for snap_scaffold_10-snap.2895-T1
Valid prediction for GeneMark_model.45333_t
Valid prediction for GlimmerHMM_glimmerT_26378-T1
Valid prediction for GlimmerHMM_glimmerT_26403-T1
Valid prediction for snap_scaffold_10-snap.2905-T1
Valid prediction for GlimmerHMM_glimmerT_26376-T1
Valid prediction for snap_scaffold_10-snap.2899-T1
Valid prediction for snap_scaffold_10-snap.2912-T1
Valid prediction for GlimmerHMM_glimmerT_26402-T1
Valid prediction for snap_scaffold_10-snap.2889-T1
Valid prediction for GlimmerHMM_glimmerT_26396-T1
Valid prediction for snap_scaffold_10-snap.2929-T1
Valid prediction for snap_scaffold_10-snap.2916-T1
Valid prediction for GeneMark_model.45307_t
Valid prediction for snap_scaffold_10-snap.2913-T1
Valid prediction for Augustus_model.g17708.t1
Valid prediction for GeneMark_model.45296_t
Valid prediction for Augustus_model.g17710.t1
Valid prediction for snap_scaffold_10-snap.2911-T1
Valid prediction for GeneMark_model.45328_t
Valid prediction for GlimmerHMM_glimmerT_26401-T1
Valid prediction for snap_scaffold_10-snap.2901-T1
Valid prediction for GlimmerHMM_glimmerT_26392-T1
Valid prediction for snap_scaffold_10-snap.2915-T1
Valid prediction for GlimmerHMM_glimmerT_26410-T1
Valid prediction for snap_scaffold_10-snap.2920-T1
Valid prediction for Augustus_model.g17712.t1
Valid prediction for GeneMark_model.45324_t
Valid prediction for GlimmerHMM_glimmerT_26385-T1
Valid prediction for GlimmerHMM_glimmerT_26399-T1
Valid prediction for snap_scaffold_10-snap.2927-T1
Valid prediction for GlimmerHMM_glimmerT_26389-T1
Valid prediction for snap_scaffold_10-snap.2919-T1
Valid prediction for GeneMark_model.45339_t
Valid prediction for GeneMark_model.45314_t
Valid prediction for GeneMark_model.45350_t
Valid prediction for GeneMark_model.45322_t
Valid prediction for snap_scaffold_10-snap.2922-T1
Valid prediction for snap_scaffold_10-snap.2891-T1
Valid prediction for GlimmerHMM_glimmerT_26390-T1
Valid prediction for snap_scaffold_10-snap.2924-T1
Valid prediction for GeneMark_model.45326_t
Valid prediction for GlimmerHMM_glimmerT_26387-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7911, rend_intergenic: 4258  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10560, rend_intergenic: 8653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17653, rend_intergenic: 10710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22771, rend_intergenic: 18211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25840, rend_intergenic: 23841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28673, rend_intergenic: 25877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33576, rend_intergenic: 30408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59578, rend_intergenic: 50520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106780, rend_intergenic: 87374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115410, rend_intergenic: 113748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137055, rend_intergenic: 132592  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155898, rend_intergenic: 151968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160465, rend_intergenic: 156183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176125, rend_intergenic: 165073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 174522, rend_intergenic: 174519  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 179445
-exon list size: 785


building trellis

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91.7    
91.9    
92.0    
92.1    
92.2    
92.4    
92.5    
92.6    
92.8    
92.9    
93.0    
93.1    
93.3    
93.4    
93.5    
93.6    
93.8    
93.9    
94.0    
94.2    
94.3    
94.4    
94.5    
94.7    
94.8    
94.9    
95.0    
95.2    
95.3    
95.4    
95.6    
95.7    
95.8    
95.9    
96.1    
96.2    
96.3    
96.4    
96.6    
96.7    
96.8    
97.0    
97.1    
97.2    
97.3    
97.5    
97.6    
97.7    
97.8    
98.0    
98.1    
98.2    
98.3    
98.5    
98.6    
98.7    
98.9    
99.0    
99.1    
99.2    
99.4    
99.5    
99.6    
99.7    
99.9    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 7911, rend_intergenic: 4258  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10560, rend_intergenic: 8653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17653, rend_intergenic: 10710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22771, rend_intergenic: 18211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25840, rend_intergenic: 23841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28673, rend_intergenic: 25877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33576, rend_intergenic: 30408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59578, rend_intergenic: 50520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106780, rend_intergenic: 87374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115410, rend_intergenic: 113748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137055, rend_intergenic: 132592  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155898, rend_intergenic: 151968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160465, rend_intergenic: 156183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176125, rend_intergenic: 165073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 174522, rend_intergenic: 174519  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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