-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_20/scaffold_20_5605322-5746416

-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_20-snap.1247-T1
Valid prediction for GlimmerHMM_glimmerT_47153-T1
Valid prediction for snap_scaffold_20-snap.1250-T1
Valid prediction for snap_scaffold_20-snap.1248-T1
Valid prediction for snap_scaffold_20-snap.1264-T1
Valid prediction for GlimmerHMM_glimmerT_47146-T1
Valid prediction for GeneMark_model.82399_t
Valid prediction for GlimmerHMM_glimmerT_47169-T1
Valid prediction for GlimmerHMM_glimmerT_47163-T1
Valid prediction for GeneMark_model.82386_t
Valid prediction for snap_scaffold_20-snap.1257-T1
Valid prediction for GeneMark_model.82404_t
Valid prediction for GlimmerHMM_glimmerT_47152-T1
Valid prediction for GlimmerHMM_glimmerT_47159-T1
Valid prediction for Augustus_model.g31453.t1
Valid prediction for GeneMark_model.82421_t
Valid prediction for GeneMark_model.82407_t
Valid prediction for GeneMark_model.82387_t
Valid prediction for GeneMark_model.82406_t
Valid prediction for snap_scaffold_20-snap.1254-T1
Valid prediction for GeneMark_model.82419_t
Valid prediction for snap_scaffold_20-snap.1243-T1
Valid prediction for GeneMark_model.82414_t
Valid prediction for GeneMark_model.82393_t
Valid prediction for snap_scaffold_20-snap.1236-T1
Valid prediction for GeneMark_model.82413_t
Valid prediction for Augustus_model.g31459.t1
Valid prediction for GlimmerHMM_glimmerT_47158-T1
Valid prediction for GeneMark_model.82401_t
Valid prediction for GlimmerHMM_glimmerT_47164-T1
Valid prediction for snap_scaffold_20-snap.1261-T1
Valid prediction for Augustus_model.g31450.t1
Valid prediction for snap_scaffold_20-snap.1251-T1
Valid prediction for GeneMark_model.82410_t
Valid prediction for GlimmerHMM_glimmerT_47157-T1
Valid prediction for GeneMark_model.82423_t
Valid prediction for snap_scaffold_20-snap.1255-T1
Valid prediction for GeneMark_model.82390_t
Valid prediction for GeneMark_model.82396_t
Valid prediction for snap_scaffold_20-snap.1266-T1
Valid prediction for GeneMark_model.82376_t
Valid prediction for GeneMark_model.82416_t
Valid prediction for snap_scaffold_20-snap.1262-T1
Valid prediction for GeneMark_model.82403_t
Valid prediction for GlimmerHMM_glimmerT_47150-T1
Valid prediction for GeneMark_model.82378_t
Valid prediction for Augustus_model.g31454.t1
Valid prediction for GlimmerHMM_glimmerT_47155-T1
Valid prediction for GeneMark_model.82384_t
Valid prediction for GlimmerHMM_glimmerT_47149-T1
Valid prediction for GeneMark_model.82380_t
Valid prediction for snap_scaffold_20-snap.1242-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.82411_t
Valid prediction for GlimmerHMM_glimmerT_47160-T1
Valid prediction for snap_scaffold_20-snap.1235-T1
Valid prediction for snap_scaffold_20-snap.1268-T1
Valid prediction for Augustus_model.g31452.t1
Valid prediction for GeneMark_model.82408_t
Valid prediction for GlimmerHMM_glimmerT_47148-T1
Valid prediction for GeneMark_model.82379_t
Valid prediction for snap_scaffold_20-snap.1244-T1
Valid prediction for snap_scaffold_20-snap.1246-T1
Valid prediction for GeneMark_model.82377_t
Valid prediction for GeneMark_model.82422_t
Valid prediction for GlimmerHMM_glimmerT_47156-T1
Valid prediction for snap_scaffold_20-snap.1258-T1
Valid prediction for snap_scaffold_20-snap.1249-T1
Valid prediction for GeneMark_model.82400_t
Valid prediction for GeneMark_model.82394_t
Valid prediction for GlimmerHMM_glimmerT_47162-T1
Valid prediction for Augustus_model.g31458.t1
Valid prediction for Augustus_model.g31447.t1
Valid prediction for Augustus_model.g31448.t1
Valid prediction for GlimmerHMM_glimmerT_47166-T1
Valid prediction for GlimmerHMM_glimmerT_47151-T1
Valid prediction for GeneMark_model.82418_t
Valid prediction for snap_scaffold_20-snap.1263-T1
Valid prediction for GeneMark_model.82383_t
Valid prediction for GeneMark_model.82405_t
Valid prediction for GeneMark_model.82385_t
Valid prediction for GeneMark_model.82395_t
Valid prediction for GlimmerHMM_glimmerT_47165-T1
Valid prediction for snap_scaffold_20-snap.1237-T1
Valid prediction for GeneMark_model.82398_t
Valid prediction for snap_scaffold_20-snap.1265-T1
Valid prediction for Augustus_model.g31451.t1
Valid prediction for GeneMark_model.82417_t
Valid prediction for GeneMark_model.82382_t
Valid prediction for snap_scaffold_20-snap.1269-T1
Valid prediction for GeneMark_model.82397_t
Valid prediction for GeneMark_model.82424_t
Valid prediction for Augustus_model.g31449.t1
Valid prediction for snap_scaffold_20-snap.1238-T1
Valid prediction for snap_scaffold_20-snap.1256-T1
Valid prediction for GeneMark_model.82392_t
Valid prediction for GeneMark_model.82409_t
Valid prediction for GlimmerHMM_glimmerT_47168-T1
Valid prediction for snap_scaffold_20-snap.1239-T1
Valid prediction for snap_scaffold_20-snap.1260-T1
Valid prediction for GlimmerHMM_glimmerT_47147-T1
Valid prediction for GeneMark_model.82412_t
Valid prediction for snap_scaffold_20-snap.1259-T1
Valid prediction for snap_scaffold_20-snap.1240-T1
Valid prediction for Augustus_model.g31457.t1
Valid prediction for GlimmerHMM_glimmerT_47145-T1
Valid prediction for snap_scaffold_20-snap.1253-T1
Valid prediction for snap_scaffold_20-snap.1241-T1
Valid prediction for GeneMark_model.82402_t
Valid prediction for GlimmerHMM_glimmerT_47161-T1
Valid prediction for GeneMark_model.82391_t
Valid prediction for GlimmerHMM_glimmerT_47167-T1
Valid prediction for GeneMark_model.82420_t
Valid prediction for GeneMark_model.82415_t
Valid prediction for GlimmerHMM_glimmerT_47154-T1
Valid prediction for GeneMark_model.82389_t
Valid prediction for GeneMark_model.82381_t
Valid prediction for snap_scaffold_20-snap.1252-T1
Valid prediction for Augustus_model.g31456.t1
Valid prediction for snap_scaffold_20-snap.1245-T1
Valid prediction for GeneMark_model.82388_t
Valid prediction for Augustus_model.g31455.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10286, rend_intergenic: 2134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31657, rend_intergenic: 27489  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54801, rend_intergenic: 31760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71451, rend_intergenic: 63056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75740, rend_intergenic: 71798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82107, rend_intergenic: 75872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85304, rend_intergenic: 82916  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93854, rend_intergenic: 90345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115717, rend_intergenic: 104880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125518, rend_intergenic: 122349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126421, rend_intergenic: 125623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130667, rend_intergenic: 126683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 141095
-exon list size: 656


building trellis

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88.9    
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90.9    
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92.9    
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98.8    
98.9    
99.1    
99.2    
99.4    
99.5    
99.7    
99.8    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 10286, rend_intergenic: 2134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31657, rend_intergenic: 27489  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54801, rend_intergenic: 31760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71451, rend_intergenic: 63056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75740, rend_intergenic: 71798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82107, rend_intergenic: 75872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85304, rend_intergenic: 82916  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93854, rend_intergenic: 90345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115717, rend_intergenic: 104880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125518, rend_intergenic: 122349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126421, rend_intergenic: 125623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130667, rend_intergenic: 126683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support