-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_9/scaffold_9_2929869-3114444

-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 GeneMark_model.38128_t
Valid prediction for GeneMark_model.38146_t
Valid prediction for GlimmerHMM_glimmerT_22284-T1
Valid prediction for snap_scaffold_9-snap.614-T1
Valid prediction for snap_scaffold_9-snap.647-T1
Valid prediction for GeneMark_model.38160_t
Valid prediction for GeneMark_model.38129_t
Valid prediction for GlimmerHMM_glimmerT_22287-T1
Valid prediction for GeneMark_model.38136_t
Valid prediction for GlimmerHMM_glimmerT_22273-T1
Valid prediction for GeneMark_model.38157_t
Valid prediction for GeneMark_model.38171_t
Valid prediction for snap_scaffold_9-snap.626-T1
Valid prediction for GeneMark_model.38178_t
Valid prediction for Augustus_model.g14905.t1
Valid prediction for snap_scaffold_9-snap.630-T1
Valid prediction for GeneMark_model.38165_t
Valid prediction for GeneMark_model.38162_t
Valid prediction for snap_scaffold_9-snap.639-T1
Valid prediction for GeneMark_model.38176_t
Valid prediction for snap_scaffold_9-snap.616-T1
Valid prediction for GeneMark_model.38169_t
Valid prediction for GeneMark_model.38172_t
Valid prediction for snap_scaffold_9-snap.624-T1
Valid prediction for snap_scaffold_9-snap.631-T1
Valid prediction for GlimmerHMM_glimmerT_22286-T1
Valid prediction for GeneMark_model.38170_t
Valid prediction for snap_scaffold_9-snap.633-T1
Valid prediction for snap_scaffold_9-snap.617-T1
Valid prediction for GeneMark_model.38167_t
Valid prediction for snap_scaffold_9-snap.632-T1
Valid prediction for Augustus_model.g14912.t1
Valid prediction for GeneMark_model.38147_t
Valid prediction for GeneMark_model.38153_t
Valid prediction for GeneMark_model.38180_t
Valid prediction for GeneMark_model.38143_t
Valid prediction for snap_scaffold_9-snap.641-T1
Valid prediction for GlimmerHMM_glimmerT_22285-T1
Valid prediction for snap_scaffold_9-snap.620-T1
Valid prediction for snap_scaffold_9-snap.638-T1
Valid prediction for Augustus_model.g14906.t1
Valid prediction for GeneMark_model.38149_t
Valid prediction for GeneMark_model.38150_t
Valid prediction for snap_scaffold_9-snap.634-T1
Valid prediction for GlimmerHMM_glimmerT_22283-T1
Valid prediction for GlimmerHMM_glimmerT_22276-T1
Valid prediction for GeneMark_model.38145_t
Valid prediction for GeneMark_model.38133_t
Valid prediction for Augustus_model.g14910.t1
Valid prediction for Augustus_model.g14908.t1
Valid prediction for GeneMark_model.38159_t
Valid prediction for Augustus_model.g14915.t1
Valid prediction for snap_scaffold_9-snap.644-T1
Valid prediction for GeneMark_model.38151_t
Valid prediction for snap_scaffold_9-snap.623-T1
Valid prediction for GeneMark_model.38130_t
Valid prediction for GlimmerHMM_glimmerT_22280-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.38163_t
Valid prediction for GeneMark_model.38139_t
Valid prediction for Augustus_model.g14916.t1
Valid prediction for GlimmerHMM_glimmerT_22277-T1
Valid prediction for Augustus_model.g14913.t1
Valid prediction for GeneMark_model.38131_t
Valid prediction for GlimmerHMM_glimmerT_22290-T1
Valid prediction for GlimmerHMM_glimmerT_22279-T1
Valid prediction for Augustus_model.g14914.t1
Valid prediction for GeneMark_model.38152_t
Valid prediction for snap_scaffold_9-snap.648-T1
Valid prediction for snap_scaffold_9-snap.628-T1
Valid prediction for GeneMark_model.38158_t
Valid prediction for GeneMark_model.38181_t
Valid prediction for GeneMark_model.38140_t
Valid prediction for GeneMark_model.38142_t
Valid prediction for snap_scaffold_9-snap.645-T1
Valid prediction for GeneMark_model.38182_t
Valid prediction for snap_scaffold_9-snap.636-T1
Valid prediction for snap_scaffold_9-snap.629-T1
Valid prediction for GeneMark_model.38175_t
Valid prediction for snap_scaffold_9-snap.622-T1
Valid prediction for Augustus_model.g14907.t1
Valid prediction for GeneMark_model.38135_t
Valid prediction for GeneMark_model.38177_t
Valid prediction for Augustus_model.g14911.t1
Valid prediction for GeneMark_model.38137_t
Valid prediction for GeneMark_model.38141_t
Valid prediction for snap_scaffold_9-snap.627-T1
Valid prediction for snap_scaffold_9-snap.637-T1
Valid prediction for GeneMark_model.38168_t
Valid prediction for snap_scaffold_9-snap.640-T1
Valid prediction for GeneMark_model.38173_t
Valid prediction for GeneMark_model.38161_t
Valid prediction for GeneMark_model.38144_t
Valid prediction for snap_scaffold_9-snap.621-T1
Valid prediction for GeneMark_model.38155_t
Valid prediction for snap_scaffold_9-snap.618-T1
Valid prediction for GeneMark_model.38166_t
Valid prediction for snap_scaffold_9-snap.642-T1
Valid prediction for GlimmerHMM_glimmerT_22278-T1
Valid prediction for snap_scaffold_9-snap.615-T1
Valid prediction for snap_scaffold_9-snap.635-T1
Valid prediction for GlimmerHMM_glimmerT_22288-T1
Valid prediction for GlimmerHMM_glimmerT_22281-T1
Valid prediction for Augustus_model.g14909.t1
Valid prediction for snap_scaffold_9-snap.643-T1
Valid prediction for GeneMark_model.38148_t
Valid prediction for GlimmerHMM_glimmerT_22282-T1
Valid prediction for snap_scaffold_9-snap.625-T1
Valid prediction for snap_scaffold_9-snap.619-T1
Valid prediction for snap_scaffold_9-snap.646-T1
Valid prediction for GeneMark_model.38138_t
Valid prediction for GlimmerHMM_glimmerT_22274-T1
Valid prediction for GlimmerHMM_glimmerT_22289-T1
Valid prediction for GlimmerHMM_glimmerT_22275-T1
Valid prediction for GeneMark_model.38134_t
Valid prediction for GeneMark_model.38156_t
Valid prediction for GeneMark_model.38179_t
Valid prediction for GeneMark_model.38154_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 44691, rend_intergenic: 42679  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56991, rend_intergenic: 50769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62368, rend_intergenic: 61572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83938, rend_intergenic: 72269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124871, rend_intergenic: 118570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129247, rend_intergenic: 126106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138312, rend_intergenic: 134720  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151924, rend_intergenic: 138658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156045, rend_intergenic: 154992  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171450, rend_intergenic: 157247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173085, rend_intergenic: 171547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182007, rend_intergenic: 174185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 184576
-exon list size: 728


building trellis

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-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 44691, rend_intergenic: 42679  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56991, rend_intergenic: 50769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62368, rend_intergenic: 61572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83938, rend_intergenic: 72269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124871, rend_intergenic: 118570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129247, rend_intergenic: 126106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138312, rend_intergenic: 134720  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151924, rend_intergenic: 138658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156045, rend_intergenic: 154992  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171450, rend_intergenic: 157247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173085, rend_intergenic: 171547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182007, rend_intergenic: 174185  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 13 predictions persist after filtering for low support