-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_11/scaffold_11_12447470-12634307

-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.49482_t
Valid prediction for Augustus_model.g19122.t1
Valid prediction for Augustus_model.g19118.t1
Valid prediction for GeneMark_model.49450_t
Valid prediction for snap_scaffold_11-snap.2698-T1
Valid prediction for snap_scaffold_11-snap.2710-T1
Valid prediction for GeneMark_model.49460_t
Valid prediction for GeneMark_model.49438_t
Valid prediction for snap_scaffold_11-snap.2695-T1
Valid prediction for GeneMark_model.49484_t
Valid prediction for GeneMark_model.49439_t
Valid prediction for GlimmerHMM_glimmerT_28641-T1
Valid prediction for GlimmerHMM_glimmerT_28655-T1
Valid prediction for GeneMark_model.49440_t
Valid prediction for Augustus_model.g19121.t1
Valid prediction for Augustus_model.g19133.t1
Valid prediction for GeneMark_model.49443_t
Valid prediction for snap_scaffold_11-snap.2683-T1
Valid prediction for GlimmerHMM_glimmerT_28658-T1
Valid prediction for GlimmerHMM_glimmerT_28665-T1
Valid prediction for snap_scaffold_11-snap.2702-T1
Valid prediction for GeneMark_model.49472_t
Valid prediction for GeneMark_model.49448_t
Valid prediction for GeneMark_model.49469_t
Valid prediction for GeneMark_model.49457_t
Valid prediction for GlimmerHMM_glimmerT_28666-T1
Valid prediction for snap_scaffold_11-snap.2687-T1
Valid prediction for GeneMark_model.49446_t
Valid prediction for snap_scaffold_11-snap.2712-T1
Valid prediction for Augustus_model.g19127.t1
Valid prediction for GlimmerHMM_glimmerT_28648-T1
Valid prediction for GlimmerHMM_glimmerT_28653-T1
Valid prediction for GeneMark_model.49436_t
Valid prediction for snap_scaffold_11-snap.2693-T1
Valid prediction for GeneMark_model.49477_t
Valid prediction for Augustus_model.g19135.t1
Valid prediction for GlimmerHMM_glimmerT_28662-T1
Valid prediction for GlimmerHMM_glimmerT_28643-T1
Valid prediction for GlimmerHMM_glimmerT_28638-T1
Valid prediction for GlimmerHMM_glimmerT_28651-T1
Valid prediction for snap_scaffold_11-snap.2690-T1
Valid prediction for snap_scaffold_11-snap.2713-T1
Valid prediction for GlimmerHMM_glimmerT_28652-T1
Valid prediction for GeneMark_model.49473_t
Valid prediction for GlimmerHMM_glimmerT_28634-T1
Valid prediction for snap_scaffold_11-snap.2699-T1
Valid prediction for snap_scaffold_11-snap.2705-T1
Valid prediction for GeneMark_model.49466_t
Valid prediction for GeneMark_model.49476_t
Valid prediction for GeneMark_model.49442_t
Valid prediction for snap_scaffold_11-snap.2672-T1
Valid prediction for GlimmerHMM_glimmerT_28635-T1
Valid prediction for GeneMark_model.49434_t
Valid prediction for GeneMark_model.49462_t
Valid prediction for GlimmerHMM_glimmerT_28650-T1
Valid prediction for GlimmerHMM_glimmerT_28663-T1
Valid prediction for GeneMark_model.49470_t
Valid prediction for GlimmerHMM_glimmerT_28654-T1
Valid prediction for snap_scaffold_11-snap.2694-T1
Valid prediction for Augustus_model.g19134.t1
Valid prediction for GeneMark_model.49480_t
Valid prediction for GlimmerHMM_glimmerT_28660-T1
Valid prediction for GeneMark_model.49455_t
Valid prediction for snap_scaffold_11-snap.2714-T1
Valid prediction for snap_scaffold_11-snap.2701-T1
Valid prediction for GeneMark_model.49467_t
Valid prediction for GeneMark_model.49461_t
Valid prediction for Augustus_model.g19128.t1
Valid prediction for GlimmerHMM_glimmerT_28645-T1
Valid prediction for Augustus_model.g19131.t1
Valid prediction for snap_scaffold_11-snap.2686-T1
Valid prediction for GlimmerHMM_glimmerT_28657-T1
Valid prediction for snap_scaffold_11-snap.2697-T1
Valid prediction for GeneMark_model.49445_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 GlimmerHMM_glimmerT_28632-T1
Valid prediction for snap_scaffold_11-snap.2703-T1
Valid prediction for snap_scaffold_11-snap.2709-T1
Valid prediction for snap_scaffold_11-snap.2708-T1
Valid prediction for Augustus_model.g19120.t1
Valid prediction for GlimmerHMM_glimmerT_28640-T1
Valid prediction for snap_scaffold_11-snap.2716-T1
Valid prediction for snap_scaffold_11-snap.2678-T1
Valid prediction for GlimmerHMM_glimmerT_28659-T1
Valid prediction for GeneMark_model.49441_t
Valid prediction for GeneMark_model.49452_t
Valid prediction for snap_scaffold_11-snap.2682-T1
Valid prediction for snap_scaffold_11-snap.2700-T1
Valid prediction for snap_scaffold_11-snap.2706-T1
Valid prediction for snap_scaffold_11-snap.2711-T1
Valid prediction for GeneMark_model.49451_t
Valid prediction for snap_scaffold_11-snap.2685-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GeneMark_model.49435_t
Valid prediction for Augustus_model.g19119.t1
Valid prediction for Augustus_model.g19116.t1
Valid prediction for GlimmerHMM_glimmerT_28647-T1
Valid prediction for Augustus_model.g19123.t1
Valid prediction for GlimmerHMM_glimmerT_28646-T1
Valid prediction for GlimmerHMM_glimmerT_28661-T1
Valid prediction for Augustus_model.g19114.t1
Valid prediction for GeneMark_model.49458_t
Valid prediction for snap_scaffold_11-snap.2696-T1
Valid prediction for GlimmerHMM_glimmerT_28633-T1
Valid prediction for GlimmerHMM_glimmerT_28637-T1
Valid prediction for snap_scaffold_11-snap.2674-T1
Valid prediction for Augustus_model.g19129.t1
Valid prediction for snap_scaffold_11-snap.2719-T1
Valid prediction for GeneMark_model.49475_t
Valid prediction for GeneMark_model.49454_t
Valid prediction for snap_scaffold_11-snap.2680-T1
Valid prediction for GeneMark_model.49463_t
Valid prediction for GeneMark_model.49479_t
Valid prediction for snap_scaffold_11-snap.2704-T1
Valid prediction for snap_scaffold_11-snap.2689-T1
Valid prediction for GeneMark_model.49449_t
Valid prediction for GlimmerHMM_glimmerT_28649-T1
Valid prediction for snap_scaffold_11-snap.2684-T1
Valid prediction for snap_scaffold_11-snap.2715-T1
Valid prediction for Augustus_model.g19130.t1
Valid prediction for snap_scaffold_11-snap.2688-T1
Valid prediction for GeneMark_model.49478_t
Valid prediction for snap_scaffold_11-snap.2671-T1
Valid prediction for snap_scaffold_11-snap.2691-T1
Valid prediction for GeneMark_model.49444_t
Valid prediction for snap_scaffold_11-snap.2718-T1
Valid prediction for GeneMark_model.49483_t
Valid prediction for snap_scaffold_11-snap.2707-T1
Valid prediction for Augustus_model.g19125.t1
Valid prediction for GlimmerHMM_glimmerT_28644-T1
Valid prediction for snap_scaffold_11-snap.2679-T1
Valid prediction for GeneMark_model.49481_t
Valid prediction for snap_scaffold_11-snap.2677-T1
Valid prediction for Augustus_model.g19117.t1
Valid prediction for GeneMark_model.49474_t
Valid prediction for snap_scaffold_11-snap.2717-T1
Valid prediction for GlimmerHMM_glimmerT_28636-T1
Valid prediction for Augustus_model.g19113.t1
Valid prediction for GeneMark_model.49432_t
Valid prediction for snap_scaffold_11-snap.2673-T1
Valid prediction for GlimmerHMM_glimmerT_28664-T1
Valid prediction for Augustus_model.g19132.t1
Valid prediction for GeneMark_model.49459_t
Valid prediction for GeneMark_model.49437_t
Valid prediction for Augustus_model.g19112.t1
Valid prediction for GeneMark_model.49453_t
Valid prediction for GeneMark_model.49433_t
Valid prediction for Augustus_model.g19124.t1
Valid prediction for GlimmerHMM_glimmerT_28656-T1
Valid prediction for GeneMark_model.49456_t
Valid prediction for GeneMark_model.49447_t
Valid prediction for Augustus_model.g19115.t1
Valid prediction for GeneMark_model.49464_t
Valid prediction for snap_scaffold_11-snap.2681-T1
Valid prediction for GeneMark_model.49465_t
Valid prediction for GlimmerHMM_glimmerT_28642-T1
Valid prediction for Augustus_model.g19126.t1
Valid prediction for GeneMark_model.49468_t
Valid prediction for snap_scaffold_11-snap.2675-T1
Valid prediction for snap_scaffold_11-snap.2676-T1
Valid prediction for GeneMark_model.49471_t
Valid prediction for snap_scaffold_11-snap.2692-T1
Valid prediction for GlimmerHMM_glimmerT_28639-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 50112, rend_intergenic: 43327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64557, rend_intergenic: 58438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67384, rend_intergenic: 66344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71754, rend_intergenic: 68631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81607, rend_intergenic: 74111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99131, rend_intergenic: 98321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103442, rend_intergenic: 100068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130620, rend_intergenic: 127025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180778, rend_intergenic: 168840  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 186838
-exon list size: 743


building trellis

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-found 43 predictions from path traversal
Error with prediction: snap lend_intergenic: 50112, rend_intergenic: 43327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64557, rend_intergenic: 58438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67384, rend_intergenic: 66344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71754, rend_intergenic: 68631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81607, rend_intergenic: 74111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99131, rend_intergenic: 98321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103442, rend_intergenic: 100068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130620, rend_intergenic: 127025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180778, rend_intergenic: 168840  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support