-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_13/scaffold_13_396259-576826

-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_13-snap.103-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for pasa_asmbl_10454.p1
Valid prediction for GeneMark_model.54458_t
Valid prediction for snap_scaffold_13-snap.104-T1
Valid prediction for GlimmerHMM_glimmerT_31649-T1
Valid prediction for Augustus_model.g21156.t1
Valid prediction for snap_scaffold_13-snap.111-T1
Valid prediction for GeneMark_model.54463_t
Valid prediction for HiQ_model.g21161.t1
Valid prediction for snap_scaffold_13-snap.92-T1
Valid prediction for Augustus_model.g21146.t1
Valid prediction for GlimmerHMM_glimmerT_31652-T1
Valid prediction for Augustus_model.g21166.t1
Valid prediction for GeneMark_model.54477_t
Valid prediction for HiQ_model.g21163.t1
Valid prediction for snap_scaffold_13-snap.89-T1
Valid prediction for CodingQuarry_transcript_12802-T1
Valid prediction for snap_scaffold_13-snap.87-T1
Valid prediction for GlimmerHMM_glimmerT_31643-T1
Valid prediction for GlimmerHMM_glimmerT_31646-T1
Valid prediction for GeneMark_model.54460_t
Valid prediction for snap_scaffold_13-snap.91-T1
Valid prediction for CodingQuarry_transcript_12805-T1
Valid prediction for GeneMark_model.54447_t
Valid prediction for Augustus_model.g21149.t1
Couldn't classify 72690, 73076
Sorry, prediction pasa_asmbl_9319.p2 fails validation.
(GGG)	 GG	72690-73076	GC	GTG
Valid prediction for Augustus_model.g21152.t1
Valid prediction for snap_scaffold_13-snap.97-T1
Valid prediction for GeneMark_model.54456_t
Valid prediction for snap_scaffold_13-snap.96-T1
Valid prediction for snap_scaffold_13-snap.93-T1
Valid prediction for GlimmerHMM_glimmerT_31644-T1
Valid prediction for GeneMark_model.54461_t
Valid prediction for GlimmerHMM_glimmerT_31651-T1
Valid prediction for GlimmerHMM_glimmerT_31659-T1
Valid prediction for GlimmerHMM_glimmerT_31657-T1
Valid prediction for snap_scaffold_13-snap.108-T1
Valid prediction for GeneMark_model.54451_t
Valid prediction for GeneMark_model.54465_t
Valid prediction for snap_scaffold_13-snap.102-T1
Valid prediction for snap_scaffold_13-snap.90-T1
Valid prediction for GeneMark_model.54472_t
Valid prediction for Augustus_model.g21150.t1
Valid prediction for snap_scaffold_13-snap.98-T1
Valid prediction for CodingQuarry_transcript_12804-T1
Valid prediction for Augustus_model.g21154.t1
Valid prediction for CodingQuarry_transcript_12803-T1
Valid prediction for snap_scaffold_13-snap.99-T1
Valid prediction for GeneMark_model.54478_t
Valid prediction for snap_scaffold_13-snap.110-T1
Valid prediction for Augustus_model.g21147.t1
Valid prediction for GeneMark_model.54469_t
Valid prediction for snap_scaffold_13-snap.94-T1
Valid prediction for GlimmerHMM_glimmerT_31654-T1
Valid prediction for GeneMark_model.54450_t
Valid prediction for Augustus_model.g21153.t1
Valid prediction for GeneMark_model.54468_t
Valid prediction for GlimmerHMM_glimmerT_31664-T1
Valid prediction for GeneMark_model.54459_t
Valid prediction for GeneMark_model.54475_t
Couldn't classify 72014, 72604
Sorry, prediction pasa_asmbl_10363.p1 fails validation.
(GCA)	 GC	72014-72604	AC	GCA
Valid prediction for Augustus_model.g21160.t1
Valid prediction for GlimmerHMM_glimmerT_31660-T1
Valid prediction for GeneMark_model.54446_t
Valid prediction for GeneMark_model.54454_t
Valid prediction for Augustus_model.g21155.t1
Valid prediction for GlimmerHMM_glimmerT_31648-T1
Valid prediction for GlimmerHMM_glimmerT_31650-T1
Valid prediction for GlimmerHMM_glimmerT_31662-T1
Valid prediction for pasa_asmbl_10452.p1
Valid prediction for snap_scaffold_13-snap.106-T1
Valid prediction for HiQ_model.g21164.t1
Valid prediction for Augustus_model.g21157.t1
Valid prediction for GlimmerHMM_glimmerT_31655-T1
Valid prediction for GlimmerHMM_glimmerT_31647-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 snap_scaffold_13-snap.105-T1
Valid prediction for GeneMark_model.54467_t
Valid prediction for GeneMark_model.54462_t
Valid prediction for snap_scaffold_13-snap.101-T1
Valid prediction for HiQ_model.g21162.t1
Valid prediction for GeneMark_model.54449_t
Valid prediction for snap_scaffold_13-snap.86-T1
Valid prediction for GlimmerHMM_glimmerT_31645-T1
Valid prediction for pasa_asmbl_9322.p1
Valid prediction for snap_scaffold_13-snap.85-T1
Valid prediction for Augustus_model.g21159.t1
Valid prediction for GeneMark_model.54452_t
Valid prediction for GeneMark_model.54455_t
Valid prediction for GeneMark_model.54471_t
Valid prediction for pasa_asmbl_9321.p1
Valid prediction for GeneMark_model.54470_t
Valid prediction for Augustus_model.g21158.t1
Valid prediction for GeneMark_model.54445_t
Valid prediction for GlimmerHMM_glimmerT_31641-T1
Valid prediction for snap_scaffold_13-snap.114-T1
Valid prediction for HiQ_model.g21165.t1
Valid prediction for snap_scaffold_13-snap.113-T1
Valid prediction for GeneMark_model.54466_t
Valid prediction for Augustus_model.g21148.t1
Valid prediction for GeneMark_model.54473_t
Valid prediction for GlimmerHMM_glimmerT_31653-T1
Valid prediction for Augustus_model.g21151.t1
Valid prediction for snap_scaffold_13-snap.88-T1
Valid prediction for CodingQuarry_transcript_12807-T1
Valid prediction for snap_scaffold_13-snap.83-T1
Valid prediction for snap_scaffold_13-snap.107-T1
Valid prediction for CodingQuarry_transcript_12808-T1
Valid prediction for snap_scaffold_13-snap.95-T1
Valid prediction for snap_scaffold_13-snap.84-T1
Valid prediction for GeneMark_model.54457_t
Valid prediction for snap_scaffold_13-snap.109-T1
Valid prediction for CodingQuarry_transcript_12806-T1
Valid prediction for GlimmerHMM_glimmerT_31663-T1
Valid prediction for HiQ_model.g21167.t1
Valid prediction for GeneMark_model.54453_t
Valid prediction for GeneMark_model.54464_t
Valid prediction for GeneMark_model.54476_t
Valid prediction for snap_scaffold_13-snap.112-T1
Valid prediction for GlimmerHMM_glimmerT_31661-T1
Valid prediction for GlimmerHMM_glimmerT_31665-T1
Valid prediction for GeneMark_model.54474_t
Valid prediction for GlimmerHMM_glimmerT_31642-T1
Valid prediction for GeneMark_model.54448_t
Valid prediction for snap_scaffold_13-snap.100-T1
Valid prediction for GlimmerHMM_glimmerT_31656-T1
Valid prediction for GeneMark_model.54479_t
Valid prediction for GlimmerHMM_glimmerT_31658-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17560, rend_intergenic: 14225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63934, rend_intergenic: 60100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94522, rend_intergenic: 85509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104248, rend_intergenic: 99290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134228, rend_intergenic: 129116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 180568
-exon list size: 492


building trellis

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99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 17560, rend_intergenic: 14225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63934, rend_intergenic: 60100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94522, rend_intergenic: 85509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104248, rend_intergenic: 99290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134228, rend_intergenic: 129116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 27 predictions persist after filtering for low support