-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_21/scaffold_21_4707657-4859938

-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_21-snap.950-T1
Valid prediction for snap_scaffold_21-snap.938-T1
Valid prediction for Augustus_model.g32659.t1
Valid prediction for snap_scaffold_21-snap.940-T1
Valid prediction for GeneMark_model.84663_t
Valid prediction for GlimmerHMM_glimmerT_48794-T1
Valid prediction for GlimmerHMM_glimmerT_48791-T1
Valid prediction for GlimmerHMM_glimmerT_48789-T1
Valid prediction for snap_scaffold_21-snap.956-T1
Valid prediction for GeneMark_model.84659_t
Valid prediction for snap_scaffold_21-snap.943-T1
Couldn't classify 111363, 112202
Sorry, prediction pasa_asmbl_28556.p1 fails validation.
(GAT)	 GT	111363-112202	GG	AAG
Valid prediction for Augustus_model.g32641.t1
Valid prediction for GeneMark_model.84679_t
Valid prediction for CodingQuarry_transcript_32454-T1
Valid prediction for GlimmerHMM_glimmerT_48785-T1
Couldn't classify 68259, 68293
Couldn't classify 73800, 73966
Sorry, prediction pasa_asmbl_28554.p1 fails validation.
(TTA)	 CG	68259-68293	GT	AGG
(AGA)	 AG	70589-70676	GT	TGG
(GCC)	 AG	71061-71121	GT	AGG
(CCA)	 AG	73800-73966	TA	AGT
-recovered pasa_asmbl_28554.p1, internal, 70589, 70676
-recovered pasa_asmbl_28554.p1, internal, 71061, 71121
Valid prediction for GeneMark_model.84677_t
Couldn't classify 50144, 50197
Sorry, prediction pasa_asmbl_28553.p1 fails validation.
(ATG)	 GG	44799-44903	GT	AGG
(AGG)	 AG	47342-47459	GT	AGG
(GCT)	 AG	48121-48155	GT	TGG
(AAT)	 AG	49691-49852	GT	AGG
(ATC)	 AG	49962-50036	GT	AGG
(GAC)	 AG	50144-50197	AG	TCA
-recovered pasa_asmbl_28553.p1, initial, 44799, 44903
-recovered pasa_asmbl_28553.p1, internal, 47342, 47459
-recovered pasa_asmbl_28553.p1, internal, 48121, 48155
-recovered pasa_asmbl_28553.p1, internal, 49691, 49852
-recovered pasa_asmbl_28553.p1, internal, 49962, 50036
Valid prediction for GlimmerHMM_glimmerT_48780-T1
Valid prediction for GeneMark_model.84651_t
Valid prediction for Augustus_model.g32647.t1
Valid prediction for GeneMark_model.84685_t
Valid prediction for GeneMark_model.84649_t
Valid prediction for Augustus_model.g32663.t1
Valid prediction for GeneMark_model.84674_t
Valid prediction for GeneMark_model.84683_t
Valid prediction for snap_scaffold_21-snap.946-T1
Valid prediction for snap_scaffold_21-snap.932-T1
Valid prediction for snap_scaffold_21-snap.928-T1
Valid prediction for GeneMark_model.84671_t
Valid prediction for GeneMark_model.84664_t
Valid prediction for Augustus_model.g32649.t1
Valid prediction for Augustus_model.g32657.t1
Valid prediction for snap_scaffold_21-snap.935-T1
Valid prediction for snap_scaffold_21-snap.936-T1
Valid prediction for Augustus_model.g32652.t1
Valid prediction for snap_scaffold_21-snap.955-T1
Valid prediction for GlimmerHMM_glimmerT_48786-T1
Valid prediction for snap_scaffold_21-snap.953-T1
Valid prediction for GlimmerHMM_glimmerT_48798-T1
Valid prediction for GeneMark_model.84653_t
Valid prediction for Augustus_model.g32662.t1
Valid prediction for snap_scaffold_21-snap.945-T1
Valid prediction for GeneMark_model.84665_t
Valid prediction for GeneMark_model.84684_t
Valid prediction for GeneMark_model.84676_t
Valid prediction for GlimmerHMM_glimmerT_48796-T1
Valid prediction for GeneMark_model.84660_t
Valid prediction for GlimmerHMM_glimmerT_48792-T1
Valid prediction for GlimmerHMM_glimmerT_48781-T1
Valid prediction for snap_scaffold_21-snap.949-T1
Valid prediction for Augustus_model.g32658.t1
Valid prediction for GlimmerHMM_glimmerT_48776-T1
Valid prediction for pasa_asmbl_28551.p1
Valid prediction for GlimmerHMM_glimmerT_48799-T1
Valid prediction for GeneMark_model.84678_t
Valid prediction for Augustus_model.g32661.t1
Valid prediction for Augustus_model.g32653.t1
Valid prediction for snap_scaffold_21-snap.933-T1
Valid prediction for CodingQuarry_transcript_32453-T1
Valid prediction for Augustus_model.g32664.t1
Valid prediction for Augustus_model.g32654.t1
Valid prediction for snap_scaffold_21-snap.948-T1
Valid prediction for GlimmerHMM_glimmerT_48779-T1
Valid prediction for GeneMark_model.84647_t
Valid prediction for GlimmerHMM_glimmerT_48783-T1
Valid prediction for snap_scaffold_21-snap.937-T1
Valid prediction for snap_scaffold_21-snap.934-T1
Valid prediction for GeneMark_model.84687_t
Valid prediction for Augustus_model.g32644.t1
Valid prediction for Augustus_model.g32645.t1
Valid prediction for HiQ_model.g32646.t1
Valid prediction for GeneMark_model.84681_t
Valid prediction for GeneMark_model.84656_t
Valid prediction for GeneMark_model.84654_t
Valid prediction for Augustus_model.g32650.t1
Valid prediction for snap_scaffold_21-snap.954-T1
Valid prediction for GlimmerHMM_glimmerT_48777-T1
Valid prediction for snap_scaffold_21-snap.929-T1
Valid prediction for GeneMark_model.84666_t
Valid prediction for GeneMark_model.84680_t
Valid prediction for GlimmerHMM_glimmerT_48790-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 Augustus_model.g32655.t1
Valid prediction for snap_scaffold_21-snap.952-T1
Valid prediction for GeneMark_model.84673_t
Valid prediction for GlimmerHMM_glimmerT_48782-T1
Valid prediction for GlimmerHMM_glimmerT_48797-T1
Valid prediction for snap_scaffold_21-snap.942-T1
Valid prediction for GeneMark_model.84662_t
Valid prediction for snap_scaffold_21-snap.944-T1
Valid prediction for GeneMark_model.84669_t
Valid prediction for GlimmerHMM_glimmerT_48793-T1
Valid prediction for snap_scaffold_21-snap.947-T1
Valid prediction for snap_scaffold_21-snap.957-T1
Valid prediction for snap_scaffold_21-snap.958-T1
Valid prediction for Augustus_model.g32656.t1
Valid prediction for GeneMark_model.84648_t
Valid prediction for GeneMark_model.84655_t
Valid prediction for snap_scaffold_21-snap.959-T1
Valid prediction for GeneMark_model.84658_t
Valid prediction for snap_scaffold_21-snap.930-T1
Valid prediction for GeneMark_model.84686_t
Valid prediction for GeneMark_model.84672_t
Valid prediction for GeneMark_model.84661_t
Valid prediction for GlimmerHMM_glimmerT_48795-T1
Valid prediction for snap_scaffold_21-snap.931-T1
Valid prediction for Augustus_model.g32651.t1
Valid prediction for GlimmerHMM_glimmerT_48784-T1
Valid prediction for snap_scaffold_21-snap.939-T1
Valid prediction for snap_scaffold_21-snap.941-T1
Valid prediction for GeneMark_model.84670_t
Valid prediction for GlimmerHMM_glimmerT_48788-T1
Valid prediction for GeneMark_model.84668_t
Valid prediction for GeneMark_model.84682_t
Valid prediction for Augustus_model.g32643.t1
Valid prediction for Augustus_model.g32660.t1
Valid prediction for Augustus_model.g32648.t1
Valid prediction for Augustus_model.g32642.t1
Valid prediction for GlimmerHMM_glimmerT_48778-T1
Valid prediction for GeneMark_model.84675_t
Valid prediction for GeneMark_model.84657_t
Valid prediction for snap_scaffold_21-snap.951-T1
Valid prediction for GeneMark_model.84650_t
Valid prediction for GlimmerHMM_glimmerT_48787-T1
Valid prediction for GeneMark_model.84667_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 61488, rend_intergenic: 58903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65869, rend_intergenic: 61551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73012, rend_intergenic: 66449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79984, rend_intergenic: 78694  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86430, rend_intergenic: 80212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108352, rend_intergenic: 102894  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124224, rend_intergenic: 123107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129830, rend_intergenic: 126556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145489, rend_intergenic: 140739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 152282
-exon list size: 551


building trellis

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98.9    
99.1    
99.3    
99.5    
99.6    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 61488, rend_intergenic: 58903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65869, rend_intergenic: 61551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73012, rend_intergenic: 66449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79984, rend_intergenic: 78694  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86430, rend_intergenic: 80212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108352, rend_intergenic: 102894  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124224, rend_intergenic: 123107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129830, rend_intergenic: 126556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145489, rend_intergenic: 140739  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