-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_9/scaffold_9_1315681-1517513

-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_9-snap.301-T1
Valid prediction for GeneMark_model.37630_t
Valid prediction for Augustus_model.g14775.t1
Valid prediction for GeneMark_model.37643_t
Valid prediction for GlimmerHMM_glimmerT_22088-T1
Valid prediction for GlimmerHMM_glimmerT_22076-T1
Valid prediction for snap_scaffold_9-snap.281-T1
Valid prediction for GeneMark_model.37669_t
Valid prediction for GeneMark_model.37667_t
Valid prediction for GlimmerHMM_glimmerT_22079-T1
Valid prediction for snap_scaffold_9-snap.280-T1
Valid prediction for snap_scaffold_9-snap.296-T1
Valid prediction for GlimmerHMM_glimmerT_22080-T1
Valid prediction for snap_scaffold_9-snap.287-T1
Valid prediction for snap_scaffold_9-snap.283-T1
Valid prediction for snap_scaffold_9-snap.314-T1
Valid prediction for snap_scaffold_9-snap.278-T1
Valid prediction for snap_scaffold_9-snap.293-T1
Valid prediction for snap_scaffold_9-snap.275-T1
Valid prediction for Augustus_model.g14776.t1
Valid prediction for snap_scaffold_9-snap.313-T1
Valid prediction for GeneMark_model.37663_t
Valid prediction for snap_scaffold_9-snap.288-T1
Valid prediction for GeneMark_model.37650_t
Valid prediction for GeneMark_model.37651_t
Valid prediction for GlimmerHMM_glimmerT_22091-T1
Valid prediction for GeneMark_model.37638_t
Valid prediction for GlimmerHMM_glimmerT_22087-T1
Valid prediction for GlimmerHMM_glimmerT_22077-T1
Valid prediction for GlimmerHMM_glimmerT_22092-T1
Valid prediction for Augustus_model.g14781.t1
Valid prediction for GeneMark_model.37633_t
Valid prediction for GlimmerHMM_glimmerT_22083-T1
Valid prediction for GlimmerHMM_glimmerT_22099-T1
Valid prediction for GeneMark_model.37652_t
Valid prediction for Augustus_model.g14782.t1
Valid prediction for GeneMark_model.37632_t
Valid prediction for snap_scaffold_9-snap.279-T1
Valid prediction for snap_scaffold_9-snap.282-T1
Valid prediction for Augustus_model.g14777.t1
Valid prediction for snap_scaffold_9-snap.309-T1
Valid prediction for snap_scaffold_9-snap.285-T1
Valid prediction for snap_scaffold_9-snap.308-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_9-snap.311-T1
Valid prediction for GeneMark_model.37627_t
Valid prediction for snap_scaffold_9-snap.286-T1
Valid prediction for Augustus_model.g14785.t1
Valid prediction for GlimmerHMM_glimmerT_22101-T1
Valid prediction for GeneMark_model.37661_t
Valid prediction for snap_scaffold_9-snap.316-T1
Valid prediction for GeneMark_model.37636_t
Valid prediction for GlimmerHMM_glimmerT_22086-T1
Valid prediction for snap_scaffold_9-snap.299-T1
Valid prediction for GeneMark_model.37657_t
Valid prediction for GeneMark_model.37659_t
Valid prediction for GlimmerHMM_glimmerT_22081-T1
Valid prediction for GeneMark_model.37671_t
Valid prediction for GeneMark_model.37666_t
Valid prediction for GeneMark_model.37641_t
Valid prediction for Augustus_model.g14780.t1
Valid prediction for Augustus_model.g14786.t1
Valid prediction for snap_scaffold_9-snap.291-T1
Valid prediction for Augustus_model.g14783.t1
Valid prediction for GeneMark_model.37653_t
Valid prediction for snap_scaffold_9-snap.300-T1
Valid prediction for GlimmerHMM_glimmerT_22084-T1
Valid prediction for snap_scaffold_9-snap.289-T1
Valid prediction for Augustus_model.g14778.t1
Valid prediction for GeneMark_model.37654_t
Valid prediction for snap_scaffold_9-snap.284-T1
Sorry, intron length (7) is less than minimum required (10)

-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.37644_t
Valid prediction for GeneMark_model.37672_t
Valid prediction for GeneMark_model.37668_t
Valid prediction for Augustus_model.g14784.t1
Valid prediction for Augustus_model.g14779.t1
Valid prediction for snap_scaffold_9-snap.274-T1
Valid prediction for GlimmerHMM_glimmerT_22095-T1
Valid prediction for GeneMark_model.37647_t
Valid prediction for GeneMark_model.37640_t
Valid prediction for GeneMark_model.37656_t
Valid prediction for snap_scaffold_9-snap.315-T1
Valid prediction for snap_scaffold_9-snap.277-T1
Valid prediction for snap_scaffold_9-snap.306-T1
Valid prediction for snap_scaffold_9-snap.302-T1
Valid prediction for GeneMark_model.37631_t
Valid prediction for snap_scaffold_9-snap.276-T1
Valid prediction for GeneMark_model.37660_t
Valid prediction for GlimmerHMM_glimmerT_22075-T1
Valid prediction for GlimmerHMM_glimmerT_22094-T1
Couldn't classify 4158, 4238
Sorry, prediction pasa_asmbl_54791.p1 fails validation.
(CTG)	 AC	4158-4238	GT	AAG
(GGG)	 AG	5121-5375	TG	GAT
-recovered pasa_asmbl_54791.p1, terminal, 5121, 5375
Valid prediction for GeneMark_model.37637_t
Valid prediction for Augustus_model.g14790.t1
Valid prediction for GeneMark_model.37655_t
Valid prediction for snap_scaffold_9-snap.304-T1
Valid prediction for snap_scaffold_9-snap.303-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_9-snap.297-T1
Valid prediction for GlimmerHMM_glimmerT_22090-T1
Valid prediction for snap_scaffold_9-snap.307-T1
Valid prediction for Augustus_model.g14774.t1
Valid prediction for GlimmerHMM_glimmerT_22074-T1
Valid prediction for snap_scaffold_9-snap.290-T1
Valid prediction for GlimmerHMM_glimmerT_22097-T1
Valid prediction for GlimmerHMM_glimmerT_22096-T1
Valid prediction for GeneMark_model.37639_t
Valid prediction for Augustus_model.g14789.t1
Valid prediction for snap_scaffold_9-snap.312-T1
Valid prediction for GlimmerHMM_glimmerT_22102-T1
Valid prediction for snap_scaffold_9-snap.292-T1
Valid prediction for GlimmerHMM_glimmerT_22098-T1
Valid prediction for GlimmerHMM_glimmerT_22100-T1
Valid prediction for GeneMark_model.37664_t
Valid prediction for snap_scaffold_9-snap.294-T1
Valid prediction for GeneMark_model.37665_t
Valid prediction for Augustus_model.g14787.t1
Valid prediction for GeneMark_model.37634_t
Valid prediction for GlimmerHMM_glimmerT_22089-T1
Valid prediction for snap_scaffold_9-snap.305-T1
Valid prediction for GlimmerHMM_glimmerT_22082-T1
Valid prediction for GeneMark_model.37646_t
Valid prediction for GeneMark_model.37649_t
Valid prediction for snap_scaffold_9-snap.317-T1
Valid prediction for GeneMark_model.37658_t
Valid prediction for GlimmerHMM_glimmerT_22093-T1
Valid prediction for GlimmerHMM_glimmerT_22103-T1
Valid prediction for GeneMark_model.37662_t
Valid prediction for GeneMark_model.37670_t
Valid prediction for snap_scaffold_9-snap.310-T1
Valid prediction for GeneMark_model.37628_t
Valid prediction for GeneMark_model.37629_t
Valid prediction for snap_scaffold_9-snap.295-T1
Valid prediction for GlimmerHMM_glimmerT_22085-T1
Valid prediction for snap_scaffold_9-snap.298-T1
Valid prediction for Augustus_model.g14788.t1
Valid prediction for GlimmerHMM_glimmerT_22078-T1
Valid prediction for GeneMark_model.37642_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6500, rend_intergenic: 2565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79617, rend_intergenic: 76019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88154, rend_intergenic: 80002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96222, rend_intergenic: 90485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106783, rend_intergenic: 98940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159384, rend_intergenic: 132891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162396, rend_intergenic: 159384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169674, rend_intergenic: 162765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174964, rend_intergenic: 169851  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178168, rend_intergenic: 176167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191750, rend_intergenic: 186547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199168, rend_intergenic: 194604  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 201833
-exon list size: 774


building trellis

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-found 44 predictions from path traversal
Error with prediction: snap lend_intergenic: 6500, rend_intergenic: 2565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79617, rend_intergenic: 76019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88154, rend_intergenic: 80002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96222, rend_intergenic: 90485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106783, rend_intergenic: 98940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159384, rend_intergenic: 132891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162396, rend_intergenic: 159384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169674, rend_intergenic: 162765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174964, rend_intergenic: 169851  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178168, rend_intergenic: 176167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191750, rend_intergenic: 186547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199168, rend_intergenic: 194604  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 32 predictions persist after filtering for low support