-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_18/scaffold_18_11237419-11451283

-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_18-snap.2413-T1
Valid prediction for GlimmerHMM_glimmerT_44157-T1
Valid prediction for GeneMark_model.76604_t
Valid prediction for GeneMark_model.76602_t
Valid prediction for CodingQuarry_transcript_23853-T1
Valid prediction for GlimmerHMM_glimmerT_44165-T1
Valid prediction for GeneMark_model.76564_t
Valid prediction for GeneMark_model.76563_t
Valid prediction for snap_scaffold_18-snap.2417-T1
Valid prediction for GeneMark_model.76599_t
Valid prediction for snap_scaffold_18-snap.2433-T1
Valid prediction for snap_scaffold_18-snap.2427-T1
Valid prediction for GeneMark_model.76573_t
Valid prediction for snap_scaffold_18-snap.2420-T1
Valid prediction for GlimmerHMM_glimmerT_44167-T1
Valid prediction for snap_scaffold_18-snap.2432-T1
Valid prediction for pasa_asmbl_20966.p1
Valid prediction for GeneMark_model.76606_t
Valid prediction for snap_scaffold_18-snap.2435-T1
Valid prediction for HiQ_model.g29555.t1
Valid prediction for Augustus_model.g29564.t1
Valid prediction for GeneMark_model.76620_t
Valid prediction for GlimmerHMM_glimmerT_44152-T1
Valid prediction for GeneMark_model.76585_t
Valid prediction for GeneMark_model.76594_t
Valid prediction for Augustus_model.g29559.t1
Valid prediction for snap_scaffold_18-snap.2446-T1
Valid prediction for snap_scaffold_18-snap.2406-T1
Valid prediction for GlimmerHMM_glimmerT_44163-T1
Valid prediction for GlimmerHMM_glimmerT_44160-T1
Valid prediction for GeneMark_model.76591_t
Valid prediction for GeneMark_model.76572_t
Valid prediction for GlimmerHMM_glimmerT_44156-T1
Valid prediction for snap_scaffold_18-snap.2410-T1
Valid prediction for GeneMark_model.76575_t
Valid prediction for GlimmerHMM_glimmerT_44159-T1
Valid prediction for GeneMark_model.76581_t
Valid prediction for GeneMark_model.76618_t
Valid prediction for GeneMark_model.76583_t
Valid prediction for GeneMark_model.76600_t
Valid prediction for snap_scaffold_18-snap.2408-T1
Valid prediction for snap_scaffold_18-snap.2444-T1
Valid prediction for GeneMark_model.76607_t
Valid prediction for GeneMark_model.76613_t
Valid prediction for GeneMark_model.76589_t
Valid prediction for snap_scaffold_18-snap.2418-T1
Valid prediction for snap_scaffold_18-snap.2407-T1
Valid prediction for GeneMark_model.76569_t
Valid prediction for GeneMark_model.76601_t
Valid prediction for GlimmerHMM_glimmerT_44168-T1
Valid prediction for GeneMark_model.76593_t
Valid prediction for snap_scaffold_18-snap.2419-T1
Valid prediction for GlimmerHMM_glimmerT_44151-T1
Valid prediction for Augustus_model.g29561.t1
Valid prediction for GeneMark_model.76571_t
Valid prediction for snap_scaffold_18-snap.2411-T1
Valid prediction for GeneMark_model.76562_t
Valid prediction for GeneMark_model.76610_t
Valid prediction for GeneMark_model.76582_t
Valid prediction for Augustus_model.g29554.t1
Valid prediction for GeneMark_model.76609_t
Valid prediction for GeneMark_model.76614_t
Valid prediction for GeneMark_model.76621_t
Valid prediction for GeneMark_model.76579_t
Valid prediction for snap_scaffold_18-snap.2440-T1
Valid prediction for GlimmerHMM_glimmerT_44155-T1
Valid prediction for GlimmerHMM_glimmerT_44161-T1
Valid prediction for snap_scaffold_18-snap.2430-T1
Valid prediction for snap_scaffold_18-snap.2429-T1
Valid prediction for GeneMark_model.76616_t
Valid prediction for Augustus_model.g29560.t1
Valid prediction for Augustus_model.g29562.t1
Valid prediction for snap_scaffold_18-snap.2414-T1
Valid prediction for Augustus_model.g29557.t1
Valid prediction for snap_scaffold_18-snap.2424-T1
Valid prediction for Augustus_model.g29556.t1
Valid prediction for snap_scaffold_18-snap.2423-T1
Valid prediction for Augustus_model.g29552.t1
Valid prediction for GeneMark_model.76587_t
Valid prediction for GlimmerHMM_glimmerT_44153-T1
Valid prediction for GeneMark_model.76567_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_44166-T1
Valid prediction for GeneMark_model.76622_t
Valid prediction for GeneMark_model.76586_t
Valid prediction for GeneMark_model.76611_t
Valid prediction for snap_scaffold_18-snap.2436-T1
Valid prediction for snap_scaffold_18-snap.2437-T1
Valid prediction for GlimmerHMM_glimmerT_44170-T1
Valid prediction for snap_scaffold_18-snap.2438-T1
Valid prediction for snap_scaffold_18-snap.2428-T1
Valid prediction for GlimmerHMM_glimmerT_44169-T1
Valid prediction for GeneMark_model.76619_t
Valid prediction for snap_scaffold_18-snap.2422-T1
Valid prediction for snap_scaffold_18-snap.2434-T1
Valid prediction for GeneMark_model.76566_t
Valid prediction for GeneMark_model.76597_t
Valid prediction for GeneMark_model.76570_t
Valid prediction for GeneMark_model.76608_t
Valid prediction for GeneMark_model.76574_t
Valid prediction for GeneMark_model.76590_t
Valid prediction for GeneMark_model.76615_t
Valid prediction for snap_scaffold_18-snap.2443-T1
Valid prediction for GeneMark_model.76617_t
Valid prediction for snap_scaffold_18-snap.2412-T1
Valid prediction for snap_scaffold_18-snap.2445-T1
Valid prediction for snap_scaffold_18-snap.2415-T1
Valid prediction for GeneMark_model.76577_t
Valid prediction for GeneMark_model.76592_t
Valid prediction for GlimmerHMM_glimmerT_44162-T1
Valid prediction for snap_scaffold_18-snap.2441-T1
Valid prediction for snap_scaffold_18-snap.2431-T1
Valid prediction for GeneMark_model.76584_t
Valid prediction for GeneMark_model.76568_t
Valid prediction for snap_scaffold_18-snap.2442-T1
Valid prediction for snap_scaffold_18-snap.2416-T1
Valid prediction for snap_scaffold_18-snap.2426-T1
Valid prediction for GeneMark_model.76576_t
Valid prediction for GeneMark_model.76595_t
Valid prediction for GeneMark_model.76603_t
Valid prediction for snap_scaffold_18-snap.2421-T1
Valid prediction for GeneMark_model.76612_t
Valid prediction for GeneMark_model.76560_t
Valid prediction for GlimmerHMM_glimmerT_44158-T1
Valid prediction for snap_scaffold_18-snap.2425-T1
Valid prediction for GeneMark_model.76565_t
Valid prediction for Augustus_model.g29563.t1
Valid prediction for GlimmerHMM_glimmerT_44164-T1
Valid prediction for GeneMark_model.76580_t
Valid prediction for GeneMark_model.76578_t
Valid prediction for GeneMark_model.76588_t
Valid prediction for GeneMark_model.76623_t
Valid prediction for Augustus_model.g29558.t1
Valid prediction for GeneMark_model.76561_t
Valid prediction for GeneMark_model.76605_t
Valid prediction for snap_scaffold_18-snap.2439-T1
Valid prediction for GlimmerHMM_glimmerT_44154-T1
Valid prediction for GeneMark_model.76598_t
Valid prediction for Augustus_model.g29565.t1
Valid prediction for snap_scaffold_18-snap.2409-T1
Valid prediction for Augustus_model.g29553.t1
Valid prediction for snap_scaffold_18-snap.2405-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 24894, rend_intergenic: 5609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48942, rend_intergenic: 29809  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56390, rend_intergenic: 52387  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82797, rend_intergenic: 74757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107936, rend_intergenic: 101763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114961, rend_intergenic: 112571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118163, rend_intergenic: 116580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135433, rend_intergenic: 134763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143476, rend_intergenic: 136317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154838, rend_intergenic: 152046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157093, rend_intergenic: 154850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178830, rend_intergenic: 157170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184056, rend_intergenic: 181408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201034, rend_intergenic: 199412  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204644, rend_intergenic: 201292  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208788, rend_intergenic: 205135  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 213865
-exon list size: 736


building trellis

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-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 24894, rend_intergenic: 5609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48942, rend_intergenic: 29809  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56390, rend_intergenic: 52387  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82797, rend_intergenic: 74757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107936, rend_intergenic: 101763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114961, rend_intergenic: 112571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118163, rend_intergenic: 116580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135433, rend_intergenic: 134763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143476, rend_intergenic: 136317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154838, rend_intergenic: 152046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157093, rend_intergenic: 154850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178830, rend_intergenic: 157170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184056, rend_intergenic: 181408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201034, rend_intergenic: 199412  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204644, rend_intergenic: 201292  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208788, rend_intergenic: 205135  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support