-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_1572876-1819867

-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 Augustus_model.g22909.t1
Valid prediction for snap_scaffold_14-snap.273-T1
Valid prediction for snap_scaffold_14-snap.269-T1
Valid prediction for GeneMark_model.58274_t
Valid prediction for GeneMark_model.58279_t
Valid prediction for GlimmerHMM_glimmerT_34053-T1
Valid prediction for snap_scaffold_14-snap.263-T1
Valid prediction for snap_scaffold_14-snap.293-T1
Valid prediction for snap_scaffold_14-snap.287-T1
Valid prediction for GeneMark_model.58290_t
Valid prediction for HiQ_model.g22905.t1
Valid prediction for snap_scaffold_14-snap.286-T1
Valid prediction for GeneMark_model.58291_t
Valid prediction for GlimmerHMM_glimmerT_34055-T1
Valid prediction for snap_scaffold_14-snap.279-T1
Valid prediction for GeneMark_model.58267_t
Valid prediction for GeneMark_model.58288_t
Valid prediction for snap_scaffold_14-snap.282-T1
Valid prediction for GlimmerHMM_glimmerT_34064-T1
Valid prediction for CodingQuarry_transcript_15522-T1
Valid prediction for GeneMark_model.58262_t
Valid prediction for snap_scaffold_14-snap.262-T1
Valid prediction for snap_scaffold_14-snap.261-T1
Valid prediction for GeneMark_model.58276_t
Valid prediction for GeneMark_model.58269_t
Valid prediction for GlimmerHMM_glimmerT_34061-T1
Valid prediction for pasa_asmbl_11804.p1
Valid prediction for GeneMark_model.58283_t
Valid prediction for snap_scaffold_14-snap.272-T1
Valid prediction for GeneMark_model.58272_t
Valid prediction for HiQ_model.g22913.t1
Valid prediction for CodingQuarry_transcript_15523-T1
Valid prediction for snap_scaffold_14-snap.267-T1
Valid prediction for GeneMark_model.58265_t
Valid prediction for snap_scaffold_14-snap.277-T1
Valid prediction for GlimmerHMM_glimmerT_34068-T1
Valid prediction for GeneMark_model.58280_t
Valid prediction for GlimmerHMM_glimmerT_34058-T1
Valid prediction for snap_scaffold_14-snap.265-T1
Valid prediction for snap_scaffold_14-snap.291-T1
Valid prediction for GeneMark_model.58277_t
Valid prediction for snap_scaffold_14-snap.288-T1
Valid prediction for GlimmerHMM_glimmerT_34065-T1
Valid prediction for GlimmerHMM_glimmerT_34069-T1
Couldn't classify 147985, 148161
Sorry, prediction pasa_asmbl_11808.p1 fails validation.
(GTT)	 CC	147985-148161	GT	AAG
(GAA)	 AG	148337-148411	GT	AGG
(CTG)	 AG	148532-148612	GT	GAG
(CAA)	 AG	148706-148795	GT	AGG
(GGA)	 AG	148898-149085	GT	CAG
(GGA)	 AG	149493-149661	GT	AGG
(CAA)	 AG	149830-150000	AA	GAA
-recovered pasa_asmbl_11808.p1, terminal, 149830, 150000
-recovered pasa_asmbl_11808.p1, internal, 148337, 148411
-recovered pasa_asmbl_11808.p1, internal, 148532, 148612
-recovered pasa_asmbl_11808.p1, internal, 148706, 148795
-recovered pasa_asmbl_11808.p1, internal, 148898, 149085
-recovered pasa_asmbl_11808.p1, internal, 149493, 149661

-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 pasa_asmbl_12873.p1
Valid prediction for Augustus_model.g22920.t1
Valid prediction for GeneMark_model.58271_t
Valid prediction for GlimmerHMM_glimmerT_34056-T1
Valid prediction for Augustus_model.g22916.t1
Valid prediction for CodingQuarry_transcript_15525-T1
Valid prediction for GlimmerHMM_glimmerT_34060-T1
Valid prediction for snap_scaffold_14-snap.289-T1
Valid prediction for GeneMark_model.58275_t
Valid prediction for Augustus_model.g22907.t1
Valid prediction for CodingQuarry_transcript_15520-T1
Valid prediction for pasa_asmbl_12890.p1
Valid prediction for GeneMark_model.58278_t
Valid prediction for snap_scaffold_14-snap.285-T1
Valid prediction for snap_scaffold_14-snap.268-T1
Valid prediction for GlimmerHMM_glimmerT_34070-T1
Valid prediction for GeneMark_model.58263_t
Valid prediction for snap_scaffold_14-snap.259-T1
Valid prediction for GeneMark_model.58281_t
Valid prediction for Augustus_model.g22914.t1
Valid prediction for Augustus_model.g22912.t1
Valid prediction for GeneMark_model.58282_t
Valid prediction for GlimmerHMM_glimmerT_34051-T1
Valid prediction for Augustus_model.g22908.t1
Valid prediction for Augustus_model.g22915.t1
Valid prediction for GeneMark_model.58270_t
Valid prediction for HiQ_model.g22906.t1
Valid prediction for snap_scaffold_14-snap.292-T1
Valid prediction for snap_scaffold_14-snap.283-T1
Valid prediction for HiQ_model.g22904.t1
Valid prediction for GlimmerHMM_glimmerT_34067-T1
Valid prediction for GeneMark_model.58292_t
Valid prediction for GeneMark_model.58266_t
Valid prediction for snap_scaffold_14-snap.281-T1
Valid prediction for GlimmerHMM_glimmerT_34057-T1
Valid prediction for Augustus_model.g22910.t1
Valid prediction for GeneMark_model.58264_t
Valid prediction for CodingQuarry_transcript_15521-T1
Valid prediction for GeneMark_model.58287_t
Valid prediction for pasa_asmbl_12879.p1
Valid prediction for HiQ_model.g22903.t1
Valid prediction for Augustus_model.g22917.t1
Valid prediction for snap_scaffold_14-snap.294-T1
Valid prediction for snap_scaffold_14-snap.284-T1
Valid prediction for GlimmerHMM_glimmerT_34063-T1
Valid prediction for Augustus_model.g22918.t1
Valid prediction for CodingQuarry_transcript_15519-T1
Valid prediction for GeneMark_model.58285_t
Valid prediction for GlimmerHMM_glimmerT_34071-T1
Valid prediction for GlimmerHMM_glimmerT_34054-T1
Valid prediction for snap_scaffold_14-snap.266-T1
Valid prediction for CodingQuarry_transcript_15517-T1
Valid prediction for GeneMark_model.58284_t
Valid prediction for snap_scaffold_14-snap.278-T1
Valid prediction for CodingQuarry_transcript_15518-T1
Valid prediction for Augustus_model.g22919.t1
Valid prediction for snap_scaffold_14-snap.264-T1
Couldn't classify 106355, 106966
Sorry, prediction pasa_asmbl_12888.p1 fails validation.
(ATG)	 AG	106355-106966	GA	GTG
Valid prediction for CodingQuarry_transcript_15524-T1
Valid prediction for snap_scaffold_14-snap.276-T1
Valid prediction for snap_scaffold_14-snap.274-T1
Valid prediction for GlimmerHMM_glimmerT_34062-T1
Valid prediction for GlimmerHMM_glimmerT_34066-T1
Valid prediction for GlimmerHMM_glimmerT_34052-T1
Valid prediction for GeneMark_model.58273_t
Valid prediction for snap_scaffold_14-snap.275-T1
Couldn't classify 72011, 72119
Couldn't classify 72574, 72625
Sorry, prediction pasa_asmbl_13849.p1 fails validation.
(GTG)	 AG	72011-72119	GT	AGG
(ACC)	 AG	72281-72416	GT	CGG
(GTC)	 AG	72574-72625	CA	CCC
-recovered pasa_asmbl_13849.p1, internal, 72011, 72119
-recovered pasa_asmbl_13849.p1, internal, 72281, 72416
Valid prediction for GlimmerHMM_glimmerT_34059-T1
Valid prediction for Augustus_model.g22911.t1
Valid prediction for GeneMark_model.58268_t
Valid prediction for snap_scaffold_14-snap.258-T1
Valid prediction for snap_scaffold_14-snap.271-T1
Valid prediction for snap_scaffold_14-snap.290-T1
Valid prediction for GeneMark_model.58289_t
Couldn't classify 107198, 107269
Sorry, prediction pasa_asmbl_12887.p1 fails validation.
(GGG)	 TA	107198-107269	GT	AAG
(GTT)	 AG	107572-107713	GT	TGG
(GTG)	 AG	107858-108115	GT	AGG
(GTA)	 AG	108222-108394	GT	ATG
(GTG)	 AG	108670-108975	GT	GAG
-recovered pasa_asmbl_12887.p1, terminal, 108670, 108975
-recovered pasa_asmbl_12887.p1, internal, 107572, 107713
-recovered pasa_asmbl_12887.p1, internal, 107858, 108115
-recovered pasa_asmbl_12887.p1, internal, 108222, 108394
-recovered pasa_asmbl_12887.p1, internal, 108670, 108975
Valid prediction for snap_scaffold_14-snap.270-T1
Valid prediction for snap_scaffold_14-snap.280-T1
Valid prediction for snap_scaffold_14-snap.260-T1
Valid prediction for GeneMark_model.58286_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 43901, rend_intergenic: 41422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52828, rend_intergenic: 45546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58869, rend_intergenic: 57661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65196, rend_intergenic: 59963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66322, rend_intergenic: 65522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86270, rend_intergenic: 83946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89065, rend_intergenic: 87590  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 246992
-exon list size: 484


building trellis

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39.5    
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48.8    
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97.9    
98.1    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 43901, rend_intergenic: 41422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52828, rend_intergenic: 45546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58869, rend_intergenic: 57661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65196, rend_intergenic: 59963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66322, rend_intergenic: 65522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86270, rend_intergenic: 83946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89065, rend_intergenic: 87590  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 13445
-exon list size: 6


building trellis

12.5    
25.0    
37.5    
50.0    
62.5    
75.0    
87.5    
-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

-building DP trellis

-building trellis in range 1 - 10551
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal

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