-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_28/scaffold_28_1595689-1683339

-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 HiQ_model.g38519.t1
Valid prediction for GlimmerHMM_glimmerT_58175-T1
Valid prediction for GlimmerHMM_glimmerT_58174-T1
Valid prediction for CodingQuarry_transcript_43538-T1
Valid prediction for GlimmerHMM_glimmerT_58187-T1
Valid prediction for GlimmerHMM_glimmerT_58179-T1
Valid prediction for snap_scaffold_28-snap.388-T1
Valid prediction for Augustus_model.g38516.t1
Valid prediction for GlimmerHMM_glimmerT_58181-T1
Valid prediction for snap_scaffold_28-snap.372-T1
Valid prediction for snap_scaffold_28-snap.378-T1
Valid prediction for snap_scaffold_28-snap.381-T1
Valid prediction for Augustus_model.g38518.t1
Valid prediction for snap_scaffold_28-snap.376-T1
Valid prediction for snap_scaffold_28-snap.375-T1
Valid prediction for snap_scaffold_28-snap.387-T1
Valid prediction for Augustus_model.g38517.t1
Valid prediction for snap_scaffold_28-snap.386-T1
Valid prediction for Augustus_model.g38522.t1
Valid prediction for Augustus_model.g38515.t1
Valid prediction for CodingQuarry_transcript_43539-T1
Valid prediction for GlimmerHMM_glimmerT_58177-T1
Valid prediction for snap_scaffold_28-snap.377-T1
Valid prediction for GlimmerHMM_glimmerT_58180-T1
Valid prediction for pasa_asmbl_37316.p1

-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_58178-T1
Valid prediction for snap_scaffold_28-snap.389-T1
Valid prediction for Augustus_model.g38514.t1
Valid prediction for GlimmerHMM_glimmerT_58182-T1
Valid prediction for GlimmerHMM_glimmerT_58171-T1
Valid prediction for GlimmerHMM_glimmerT_58185-T1
Valid prediction for Augustus_model.g38521.t1
Valid prediction for snap_scaffold_28-snap.384-T1
Valid prediction for GlimmerHMM_glimmerT_58184-T1
Valid prediction for snap_scaffold_28-snap.370-T1
Valid prediction for snap_scaffold_28-snap.373-T1
Valid prediction for snap_scaffold_28-snap.385-T1
Valid prediction for Augustus_model.g38513.t1
Couldn't classify 22241, 22355
Couldn't classify 23642, 23932
Sorry, prediction pasa_asmbl_38003.p1 fails validation.
(GAT)	 CA	22241-22355	GT	GTG
(CTG)	 AG	23350-23462	GT	GGG
(TCC)	 AG	23642-23932	AC	GGA
-recovered pasa_asmbl_38003.p1, internal, 23350, 23462
Valid prediction for snap_scaffold_28-snap.379-T1
Valid prediction for GlimmerHMM_glimmerT_58183-T1
Valid prediction for GlimmerHMM_glimmerT_58186-T1
Valid prediction for HiQ_model.g38520.t1
Valid prediction for snap_scaffold_28-snap.382-T1
Valid prediction for GlimmerHMM_glimmerT_58172-T1
Valid prediction for GlimmerHMM_glimmerT_58173-T1
Couldn't classify 34221, 34485
Couldn't classify 36947, 37006
Sorry, prediction pasa_asmbl_37998.p1 fails validation.
(GAC)	 CA	34221-34485	GT	CGG
(AGA)	 AG	35039-35233	GT	GGG
(CAG)	 AG	35288-35484	GT	AGG
(GAG)	 AG	35942-36130	GT	CGG
(GGA)	 AG	36272-36394	GT	ATG
(GTG)	 AG	36492-36558	GT	AGG
(ACC)	 AG	36650-36831	GC	AGG
(GCT)	 AG	36947-37006	AA	AAA
-recovered pasa_asmbl_37998.p1, internal, 35039, 35233
-recovered pasa_asmbl_37998.p1, internal, 35288, 35484
-recovered pasa_asmbl_37998.p1, internal, 35942, 36130
-recovered pasa_asmbl_37998.p1, internal, 36272, 36394
-recovered pasa_asmbl_37998.p1, internal, 36492, 36558
-recovered pasa_asmbl_37998.p1, internal, 36650, 36831
Couldn't classify 37188, 37380
Sorry, prediction pasa_asmbl_37997.p1 fails validation.
(AGA)	 AC	37188-37380	GT	AGG
(GCA)	 AG	37499-38402	GT	GGG
(GGA)	 AG	38552-38683	GT	AGG
(CTG)	 AG	38968-39217	AG	AAA
-recovered pasa_asmbl_37997.p1, terminal, 38968, 39217
-recovered pasa_asmbl_37997.p1, internal, 37499, 38402
-recovered pasa_asmbl_37997.p1, internal, 38552, 38683
Valid prediction for snap_scaffold_28-snap.371-T1
Valid prediction for snap_scaffold_28-snap.383-T1
Valid prediction for snap_scaffold_28-snap.374-T1
Valid prediction for snap_scaffold_28-snap.380-T1
Valid prediction for GlimmerHMM_glimmerT_58176-T1
Valid prediction for pasa_asmbl_38002.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14271, rend_intergenic: 13320  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26078, rend_intergenic: 24054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81861, rend_intergenic: 78270  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 87651
-exon list size: 197


building trellis

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98.0    
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99.0    
99.5    
-found 12 predictions from path traversal
Error with prediction: snap lend_intergenic: 14271, rend_intergenic: 13320  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26078, rend_intergenic: 24054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81861, rend_intergenic: 78270  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 10 predictions persist after filtering for low support