-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_2968132-3293551

-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 GlimmerHMM_glimmerT_33487-T1
Valid prediction for Augustus_model.g22405.t1
Valid prediction for snap_scaffold_14-snap.527-T1
Valid prediction for GlimmerHMM_glimmerT_33479-T1
Valid prediction for GlimmerHMM_glimmerT_33484-T1
Valid prediction for HiQ_model.g22402.t1
Valid prediction for snap_scaffold_14-snap.526-T1
Valid prediction for CodingQuarry_transcript_15612-T1
Valid prediction for HiQ_model.g22403.t1
Valid prediction for GlimmerHMM_glimmerT_33482-T1
Valid prediction for snap_scaffold_14-snap.532-T1
Valid prediction for GlimmerHMM_glimmerT_33473-T1
Valid prediction for snap_scaffold_14-snap.535-T1
Valid prediction for snap_scaffold_14-snap.520-T1
Valid prediction for GlimmerHMM_glimmerT_33490-T1
Couldn't classify 268760, 268901
Sorry, prediction pasa_asmbl_11929.p1 fails validation.
(TCA)	 TT	268760-268901	GT	TGG
(TGT)	 AG	269947-270222	GT	GGG
(GTG)	 AG	270532-270601	GT	AGG
(GTC)	 AG	270789-271716	GT	AGG
(GAA)	 AG	271860-271994	GT	GGG
(ATC)	 AG	272225-272354	GT	TGG
(GTT)	 AG	272640-272768	GT	AGG
(TTG)	 AG	273320-273424	GT	AGG
(GGC)	 AG	273839-274002	GT	AGG
(ATT)	 AG	274263-274413	GT	AGG
(TTG)	 AG	274698-275261	GT	TGG
(GTG)	 AG	275464-275570	GT	AGG
(GAC)	 AG	275675-275795	GT	AGG
(GTG)	 AG	275972-276072	GC	AGG
(ATC)	 AG	276391-276555	GG	AAG
-recovered pasa_asmbl_11929.p1, terminal, 273320, 273424
-recovered pasa_asmbl_11929.p1, terminal, 276391, 276555
-recovered pasa_asmbl_11929.p1, internal, 269947, 270222
-recovered pasa_asmbl_11929.p1, internal, 270532, 270601
-recovered pasa_asmbl_11929.p1, internal, 270789, 271716
-recovered pasa_asmbl_11929.p1, internal, 271860, 271994
-recovered pasa_asmbl_11929.p1, internal, 272225, 272354
-recovered pasa_asmbl_11929.p1, internal, 272640, 272768
-recovered pasa_asmbl_11929.p1, internal, 273320, 273424
-recovered pasa_asmbl_11929.p1, internal, 273839, 274002
-recovered pasa_asmbl_11929.p1, internal, 274263, 274413
-recovered pasa_asmbl_11929.p1, internal, 274698, 275261
-recovered pasa_asmbl_11929.p1, internal, 275464, 275570
-recovered pasa_asmbl_11929.p1, internal, 275675, 275795
-recovered pasa_asmbl_11929.p1, internal, 275972, 276072
Couldn't classify 133679, 133765
Couldn't classify 134409, 134525
Sorry, prediction pasa_asmbl_11902.p1 fails validation.
(AGT)	 GC	133679-133765	GT	TGG
(GGT)	 AG	133886-133966	GT	CAG
(GGT)	 AG	134125-134274	GT	GTG
(ATT)	 AG	134409-134525	GT	ATG
-recovered pasa_asmbl_11902.p1, internal, 133886, 133966
-recovered pasa_asmbl_11902.p1, internal, 134125, 134274
-recovered pasa_asmbl_11902.p1, internal, 134409, 134525
Valid prediction for snap_scaffold_14-snap.524-T1
Valid prediction for snap_scaffold_14-snap.543-T1
Valid prediction for Augustus_model.g22406.t1
Valid prediction for CodingQuarry_transcript_15606-T1
Valid prediction for snap_scaffold_14-snap.539-T1
Valid prediction for snap_scaffold_14-snap.538-T1
Valid prediction for snap_scaffold_14-snap.525-T1
Valid prediction for snap_scaffold_14-snap.537-T1
Valid prediction for CodingQuarry_transcript_15607-T1
Valid prediction for GlimmerHMM_glimmerT_33478-T1
Valid prediction for snap_scaffold_14-snap.521-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33488-T1
Valid prediction for snap_scaffold_14-snap.531-T1
Valid prediction for snap_scaffold_14-snap.534-T1
Valid prediction for snap_scaffold_14-snap.536-T1
Valid prediction for pasa_asmbl_11911.p1
Valid prediction for pasa_asmbl_11900.p1
Valid prediction for GlimmerHMM_glimmerT_33465-T1
Valid prediction for Augustus_model.g22401.t1
Valid prediction for snap_scaffold_14-snap.533-T1
Valid prediction for GlimmerHMM_glimmerT_33466-T1
Valid prediction for GlimmerHMM_glimmerT_33485-T1
Valid prediction for snap_scaffold_14-snap.528-T1
Valid prediction for CodingQuarry_transcript_15611-T1
Valid prediction for pasa_asmbl_11935.p1
Valid prediction for GlimmerHMM_glimmerT_33468-T1
Valid prediction for snap_scaffold_14-snap.541-T1
Valid prediction for GlimmerHMM_glimmerT_33486-T1
Valid prediction for HiQ_model.g22397.t1
Valid prediction for GlimmerHMM_glimmerT_33472-T1
Valid prediction for GlimmerHMM_glimmerT_33477-T1
Valid prediction for GlimmerHMM_glimmerT_33493-T1
Valid prediction for HiQ_model.g22404.t1
Valid prediction for CodingQuarry_transcript_15605-T1
Valid prediction for snap_scaffold_14-snap.540-T1
Valid prediction for pasa_asmbl_11926.p1
Valid prediction for pasa_asmbl_11904.p1
Valid prediction for snap_scaffold_14-snap.514-T1
Valid prediction for snap_scaffold_14-snap.517-T1
Valid prediction for CodingQuarry_transcript_15603-T1
Valid prediction for Augustus_model.g22396.t1
Valid prediction for GlimmerHMM_glimmerT_33491-T1
Valid prediction for snap_scaffold_14-snap.510-T1
Valid prediction for snap_scaffold_14-snap.515-T1
Valid prediction for snap_scaffold_14-snap.519-T1
Valid prediction for GlimmerHMM_glimmerT_33464-T1
Valid prediction for snap_scaffold_14-snap.523-T1
Valid prediction for CodingQuarry_transcript_15610-T1
Valid prediction for Augustus_model.g22391.t1
Valid prediction for Augustus_model.g22398.t1
Valid prediction for CodingQuarry_transcript_15604-T1
Valid prediction for HiQ_model.g22392.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 GlimmerHMM_glimmerT_33475-T1
Valid prediction for snap_scaffold_14-snap.522-T1
Valid prediction for GlimmerHMM_glimmerT_33480-T1
Valid prediction for GlimmerHMM_glimmerT_33492-T1
Valid prediction for GlimmerHMM_glimmerT_33469-T1
Valid prediction for snap_scaffold_14-snap.507-T1
Valid prediction for snap_scaffold_14-snap.508-T1
Couldn't classify 112253, 113689
Sorry, prediction pasa_asmbl_13000.p1 fails validation.
(CAC)	 TG	112253-113689	AT	AAA
Valid prediction for snap_scaffold_14-snap.530-T1
Valid prediction for Augustus_model.g22394.t1
Valid prediction for snap_scaffold_14-snap.511-T1
Valid prediction for GlimmerHMM_glimmerT_33489-T1
Valid prediction for snap_scaffold_14-snap.518-T1
Valid prediction for GlimmerHMM_glimmerT_33471-T1
Valid prediction for GlimmerHMM_glimmerT_33467-T1
Valid prediction for snap_scaffold_14-snap.506-T1
Valid prediction for snap_scaffold_14-snap.516-T1
Valid prediction for GlimmerHMM_glimmerT_33476-T1
Valid prediction for Augustus_model.g22388.t1
Valid prediction for Augustus_model.g22400.t1
Valid prediction for Augustus_model.g22393.t1
Valid prediction for Augustus_model.g22390.t1
Valid prediction for snap_scaffold_14-snap.529-T1
Valid prediction for Augustus_model.g22389.t1
Valid prediction for GlimmerHMM_glimmerT_33483-T1
Valid prediction for snap_scaffold_14-snap.509-T1
Valid prediction for HiQ_model.g22399.t1
Valid prediction for GlimmerHMM_glimmerT_33463-T1
Valid prediction for snap_scaffold_14-snap.512-T1
Valid prediction for pasa_asmbl_12999.p2
Valid prediction for Augustus_model.g22395.t1
Valid prediction for snap_scaffold_14-snap.542-T1
Valid prediction for GlimmerHMM_glimmerT_33470-T1
Valid prediction for GlimmerHMM_glimmerT_33474-T1
Valid prediction for GlimmerHMM_glimmerT_33481-T1
Valid prediction for CodingQuarry_transcript_15609-T1
Valid prediction for snap_scaffold_14-snap.513-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 143468, rend_intergenic: 140414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143548, rend_intergenic: 143541  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153393, rend_intergenic: 143646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 325420
-exon list size: 379


building trellis

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96.3    
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97.6    
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98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 143468, rend_intergenic: 140414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143548, rend_intergenic: 143541  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153393, rend_intergenic: 143646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11924
-exon list size: 1


building trellis

33.3    
66.7    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support