-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_16341399-16533337

-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_8-snap.2999-T1
Valid prediction for GeneMark_model.36769_t
Valid prediction for GlimmerHMM_glimmerT_21562-T1
Valid prediction for GlimmerHMM_glimmerT_21567-T1
Valid prediction for GeneMark_model.36760_t
Valid prediction for GeneMark_model.36781_t
Valid prediction for GeneMark_model.36767_t
Valid prediction for CodingQuarry_transcript_59775-T1
Valid prediction for GeneMark_model.36778_t
Valid prediction for GeneMark_model.36783_t
Valid prediction for snap_scaffold_8-snap.3008-T1
Valid prediction for Augustus_model.g14435.t1
Valid prediction for GeneMark_model.36772_t
Valid prediction for GeneMark_model.36762_t
Valid prediction for pasa_asmbl_52446.p1
Valid prediction for snap_scaffold_8-snap.3003-T1
Valid prediction for GlimmerHMM_glimmerT_21553-T1
Valid prediction for GlimmerHMM_glimmerT_21564-T1
Valid prediction for GlimmerHMM_glimmerT_21556-T1
Valid prediction for GeneMark_model.36768_t
Valid prediction for snap_scaffold_8-snap.3005-T1
Valid prediction for GeneMark_model.36775_t
Valid prediction for GeneMark_model.36788_t
Valid prediction for Augustus_model.g14427.t1
Valid prediction for GeneMark_model.36759_t
Valid prediction for GlimmerHMM_glimmerT_21558-T1
Valid prediction for HiQ_model.g14428.t1
Valid prediction for GeneMark_model.36763_t
Valid prediction for GlimmerHMM_glimmerT_21554-T1
Valid prediction for snap_scaffold_8-snap.3010-T1
Valid prediction for snap_scaffold_8-snap.3020-T1
Valid prediction for Augustus_model.g14426.t1
Valid prediction for snap_scaffold_8-snap.3006-T1
Valid prediction for GeneMark_model.36786_t
Valid prediction for snap_scaffold_8-snap.3017-T1
Valid prediction for snap_scaffold_8-snap.3014-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.36784_t
Valid prediction for GeneMark_model.36787_t
Valid prediction for GlimmerHMM_glimmerT_21569-T1
Valid prediction for pasa_asmbl_53404.p1
Valid prediction for GeneMark_model.36773_t
Valid prediction for snap_scaffold_8-snap.2998-T1
Valid prediction for GeneMark_model.36779_t
Valid prediction for snap_scaffold_8-snap.2995-T1
Valid prediction for GlimmerHMM_glimmerT_21557-T1
Valid prediction for GeneMark_model.36770_t
Valid prediction for GeneMark_model.36766_t
Valid prediction for Augustus_model.g14432.t1
Valid prediction for GeneMark_model.36765_t
Valid prediction for CodingQuarry_transcript_59776-T1
Valid prediction for GlimmerHMM_glimmerT_21559-T1
Valid prediction for HiQ_model.g14439.t1
Valid prediction for Augustus_model.g14433.t1
Valid prediction for GlimmerHMM_glimmerT_21561-T1
Valid prediction for snap_scaffold_8-snap.3001-T1
Valid prediction for Augustus_model.g14436.t1
Valid prediction for Augustus_model.g14425.t1
Couldn't classify 87615, 87659
Couldn't classify 91742, 91884
Sorry, prediction pasa_asmbl_53403.p1 fails validation.
(GTT)	 AG	87615-87659	GT	AGG
(GTT)	 AG	89757-89768	GT	TGG
(GAT)	 AG	90768-90902	GT	GGG
(TTT)	 AG	91209-91255	GT	GAG
(TAT)	 AG	91515-91576	GT	AAG
(GCT)	 AG	91742-91884	CA	ACC
-recovered pasa_asmbl_53403.p1, internal, 87615, 87659
-recovered pasa_asmbl_53403.p1, internal, 89757, 89768
-recovered pasa_asmbl_53403.p1, internal, 90768, 90902
-recovered pasa_asmbl_53403.p1, internal, 91209, 91255
-recovered pasa_asmbl_53403.p1, internal, 91515, 91576
Valid prediction for snap_scaffold_8-snap.3019-T1
Valid prediction for GlimmerHMM_glimmerT_21566-T1
Valid prediction for Augustus_model.g14437.t1
Valid prediction for HiQ_model.g14429.t1
Couldn't classify 15414, 15621
Sorry, prediction pasa_asmbl_53428.p1 fails validation.
(TGC)	 AG	15414-15621	GT	CAG
(GTA)	 AG	16133-16249	GT	AGG
(GGC)	 AG	18342-18443	GT	AGG
(GCT)	 AG	20444-20599	GT	AGG
(GTG)	 AG	20835-20935	GT	ATG
(GAC)	 AG	21447-21704	GT	AAG
(CCT)	 AG	21846-21961	GT	AGG
(GGA)	 AG	22063-22189	GT	AGG
(GTG)	 AG	22355-22445	GT	AGG
(AGT)	 AG	23529-23676	GT	ATG
(AGA)	 AG	24588-24787	GT	AGG
(ATT)	 AG	25661-25764	GT	AGG
(GAT)	 AG	26009-26077	GT	AGG
(GCC)	 AG	26184-26318	GT	AGG
(AAG)	 AG	28283-28390	GT	AGG
(TCA)	 AG	29574-29657	GT	TGG
(TGC)	 AG	29887-29979	GT	AGG
(AGG)	 AG	30594-30728	GT	CGG
(GGT)	 AG	31144-31321	GT	GGG
(GCA)	 AG	31411-31487	GT	CGG
(AGT)	 AG	31574-31667	GT	AGG
(CTT)	 AG	33592-33650	AG	GAA
-recovered pasa_asmbl_53428.p1, terminal, 33592, 33650
-recovered pasa_asmbl_53428.p1, internal, 15414, 15621
-recovered pasa_asmbl_53428.p1, internal, 16133, 16249
-recovered pasa_asmbl_53428.p1, internal, 18342, 18443
-recovered pasa_asmbl_53428.p1, internal, 20444, 20599
-recovered pasa_asmbl_53428.p1, internal, 20835, 20935
-recovered pasa_asmbl_53428.p1, internal, 21447, 21704
-recovered pasa_asmbl_53428.p1, internal, 21846, 21961
-recovered pasa_asmbl_53428.p1, internal, 22063, 22189
-recovered pasa_asmbl_53428.p1, internal, 22355, 22445
-recovered pasa_asmbl_53428.p1, internal, 23529, 23676
-recovered pasa_asmbl_53428.p1, internal, 24588, 24787
-recovered pasa_asmbl_53428.p1, internal, 25661, 25764
-recovered pasa_asmbl_53428.p1, internal, 26009, 26077
-recovered pasa_asmbl_53428.p1, internal, 26184, 26318
-recovered pasa_asmbl_53428.p1, internal, 28283, 28390
-recovered pasa_asmbl_53428.p1, internal, 29574, 29657
-recovered pasa_asmbl_53428.p1, internal, 29887, 29979
-recovered pasa_asmbl_53428.p1, internal, 30594, 30728
-recovered pasa_asmbl_53428.p1, internal, 31144, 31321
-recovered pasa_asmbl_53428.p1, internal, 31411, 31487
-recovered pasa_asmbl_53428.p1, internal, 31574, 31667
Valid prediction for HiQ_model.g14438.t1
Valid prediction for snap_scaffold_8-snap.2997-T1
Valid prediction for Augustus_model.g14431.t1
Valid prediction for snap_scaffold_8-snap.3000-T1
Valid prediction for snap_scaffold_8-snap.3015-T1
Valid prediction for Augustus_model.g14434.t1
Valid prediction for GlimmerHMM_glimmerT_21570-T1
Valid prediction for GeneMark_model.36771_t
Valid prediction for CodingQuarry_transcript_59777-T1
Valid prediction for snap_scaffold_8-snap.2994-T1
Valid prediction for snap_scaffold_8-snap.3009-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.3007-T1
Valid prediction for snap_scaffold_8-snap.3013-T1
Valid prediction for GlimmerHMM_glimmerT_21565-T1
Valid prediction for GlimmerHMM_glimmerT_21551-T1
Valid prediction for GeneMark_model.36776_t
Valid prediction for GlimmerHMM_glimmerT_21563-T1
Valid prediction for Augustus_model.g14440.t1
Valid prediction for snap_scaffold_8-snap.2996-T1
Valid prediction for GlimmerHMM_glimmerT_21555-T1
Valid prediction for pasa_asmbl_53415.p1
Valid prediction for GeneMark_model.36764_t
Valid prediction for snap_scaffold_8-snap.3016-T1
Valid prediction for snap_scaffold_8-snap.3004-T1
Valid prediction for snap_scaffold_8-snap.3012-T1
Valid prediction for GlimmerHMM_glimmerT_21568-T1
Valid prediction for GeneMark_model.36785_t
Valid prediction for GlimmerHMM_glimmerT_21552-T1
Valid prediction for pasa_asmbl_53389.p1
Valid prediction for GlimmerHMM_glimmerT_21560-T1
Valid prediction for GeneMark_model.36761_t
Valid prediction for snap_scaffold_8-snap.3022-T1
Valid prediction for snap_scaffold_8-snap.3021-T1
Valid prediction for GeneMark_model.36777_t
Valid prediction for pasa_asmbl_53416.p1
Valid prediction for snap_scaffold_8-snap.3011-T1
Valid prediction for snap_scaffold_8-snap.3018-T1
Valid prediction for Augustus_model.g14430.t1
Valid prediction for snap_scaffold_8-snap.2993-T1
Valid prediction for GeneMark_model.36780_t
Valid prediction for snap_scaffold_8-snap.3002-T1
Valid prediction for GeneMark_model.36774_t
Valid prediction for GlimmerHMM_glimmerT_21571-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 123328, rend_intergenic: 118612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171842, rend_intergenic: 168264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180169, rend_intergenic: 176942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 191939
-exon list size: 474


building trellis

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85.3    
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86.1    
86.3    
86.6    
86.8    
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87.2    
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88.9    
89.1    
89.3    
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89.7    
89.9    
90.1    
90.3    
90.5    
90.8    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
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92.9    
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93.9    
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95.2    
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95.8    
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97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.2    
99.4    
99.6    
99.8    
-found 17 predictions from path traversal
Error with prediction: snap lend_intergenic: 123328, rend_intergenic: 118612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171842, rend_intergenic: 168264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180169, rend_intergenic: 176942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support