-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_1160884-1398762

-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_20-snap.290-T1
Couldn't classify 133816, 133942
Sorry, prediction pasa_asmbl_26411.p1 fails validation.
(GGG)	 AG	133816-133942	GT	AGG
(CCT)	 AG	134488-134547	GT	TGG
(TGG)	 AG	135085-135419	TA	GAT
-recovered pasa_asmbl_26411.p1, terminal, 135085, 135419
-recovered pasa_asmbl_26411.p1, internal, 133816, 133942
-recovered pasa_asmbl_26411.p1, internal, 134488, 134547
Valid prediction for snap_scaffold_20-snap.275-T1
Couldn't classify 159729, 159871
Couldn't classify 160144, 160144
Sorry, prediction CodingQuarry_transcript_30406-T1 fails validation.
(ATG)	 GT	158628-158663	GT	AGG
(CAA)	 AG	159729-159871	CA	TAC
(GAT)	 AG	160144-160144	AT	GGA
-recovered CodingQuarry_transcript_30406-T1, initial, 158628, 158663
Valid prediction for CodingQuarry_transcript_30404-T1
Valid prediction for Augustus_model.g30175.t1
Valid prediction for snap_scaffold_20-snap.281-T1
Valid prediction for GlimmerHMM_glimmerT_45429-T1
Valid prediction for snap_scaffold_20-snap.270-T1
Valid prediction for snap_scaffold_20-snap.268-T1
Valid prediction for Augustus_model.g30176.t1
Valid prediction for GlimmerHMM_glimmerT_45423-T1
Valid prediction for Augustus_model.g30172.t1
Valid prediction for Augustus_model.g30170.t1
Valid prediction for snap_scaffold_20-snap.291-T1
Valid prediction for GlimmerHMM_glimmerT_45444-T1
Valid prediction for GlimmerHMM_glimmerT_45430-T1
Valid prediction for snap_scaffold_20-snap.278-T1
Valid prediction for snap_scaffold_20-snap.279-T1
Valid prediction for GlimmerHMM_glimmerT_45432-T1
Valid prediction for Augustus_model.g30179.t1
Valid prediction for GlimmerHMM_glimmerT_45437-T1
Valid prediction for snap_scaffold_20-snap.298-T1
Valid prediction for Augustus_model.g30185.t1
Valid prediction for snap_scaffold_20-snap.284-T1
Valid prediction for snap_scaffold_20-snap.259-T1
Valid prediction for GlimmerHMM_glimmerT_45428-T1
Valid prediction for CodingQuarry_transcript_30405-T1
Valid prediction for Augustus_model.g30177.t1
Valid prediction for snap_scaffold_20-snap.260-T1
Couldn't classify 149995, 150124
Couldn't classify 150575, 151020
Sorry, prediction pasa_asmbl_27225.p1 fails validation.
(ATT)	 AG	149995-150124	GT	AGG
(AAG)	 AG	150575-151020	AA	GAA
-recovered pasa_asmbl_27225.p1, internal, 149995, 150124
Valid prediction for snap_scaffold_20-snap.255-T1
Valid prediction for snap_scaffold_20-snap.273-T1
Valid prediction for Augustus_model.g30181.t1
Valid prediction for snap_scaffold_20-snap.263-T1
Valid prediction for GlimmerHMM_glimmerT_45436-T1
Valid prediction for GlimmerHMM_glimmerT_45440-T1
Valid prediction for snap_scaffold_20-snap.282-T1
Valid prediction for snap_scaffold_20-snap.300-T1
Valid prediction for snap_scaffold_20-snap.287-T1
Valid prediction for GlimmerHMM_glimmerT_45445-T1
Valid prediction for snap_scaffold_20-snap.285-T1
Valid prediction for GlimmerHMM_glimmerT_45439-T1
Valid prediction for GlimmerHMM_glimmerT_45434-T1
Valid prediction for Augustus_model.g30178.t1
Valid prediction for Augustus_model.g30168.t1
Valid prediction for snap_scaffold_20-snap.262-T1
Valid prediction for snap_scaffold_20-snap.295-T1
Valid prediction for Augustus_model.g30180.t1
Valid prediction for GlimmerHMM_glimmerT_45438-T1
Valid prediction for GlimmerHMM_glimmerT_45442-T1
Valid prediction for snap_scaffold_20-snap.293-T1
Valid prediction for snap_scaffold_20-snap.264-T1
Valid prediction for Augustus_model.g30183.t1
Valid prediction for snap_scaffold_20-snap.286-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 Augustus_model.g30187.t1
Couldn't classify 198463, 198559
Couldn't classify 199591, 199730
Sorry, prediction pasa_asmbl_26279.p1 fails validation.
(TCT)	 CA	198463-198559	GT	AGG
(AGA)	 AG	198919-199011	GT	TGG
(TCT)	 AG	199315-199398	GT	AGG
(GCA)	 AG	199591-199730	GA	CAG
-recovered pasa_asmbl_26279.p1, internal, 198919, 199011
-recovered pasa_asmbl_26279.p1, internal, 199315, 199398
Valid prediction for snap_scaffold_20-snap.272-T1
Valid prediction for snap_scaffold_20-snap.299-T1
Valid prediction for snap_scaffold_20-snap.257-T1
Couldn't classify 65518, 65685
Sorry, prediction pasa_asmbl_25555.p1 fails validation.
(ATG)	 CC	63883-64074	GT	AGG
(GTT)	 AG	64575-64672	GT	ATG
(GGT)	 AG	64778-64967	GT	GGG
(GAC)	 AG	65518-65685	GT	AGG
-recovered pasa_asmbl_25555.p1, initial, 63883, 64074
-recovered pasa_asmbl_25555.p1, internal, 64575, 64672
-recovered pasa_asmbl_25555.p1, internal, 64778, 64967
-recovered pasa_asmbl_25555.p1, internal, 65518, 65685
Valid prediction for GlimmerHMM_glimmerT_45435-T1
Valid prediction for snap_scaffold_20-snap.265-T1
Valid prediction for Augustus_model.g30169.t1
Valid prediction for snap_scaffold_20-snap.256-T1
Valid prediction for GlimmerHMM_glimmerT_45441-T1
Valid prediction for snap_scaffold_20-snap.297-T1
Valid prediction for GlimmerHMM_glimmerT_45426-T1
Valid prediction for snap_scaffold_20-snap.261-T1
Valid prediction for snap_scaffold_20-snap.296-T1
Valid prediction for snap_scaffold_20-snap.292-T1
Valid prediction for Augustus_model.g30188.t1
Valid prediction for Augustus_model.g30173.t1
Valid prediction for snap_scaffold_20-snap.258-T1
Valid prediction for GlimmerHMM_glimmerT_45425-T1
Valid prediction for snap_scaffold_20-snap.289-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.276-T1
Valid prediction for Augustus_model.g30189.t1
Valid prediction for GlimmerHMM_glimmerT_45433-T1
Valid prediction for Augustus_model.g30174.t1
Valid prediction for GlimmerHMM_glimmerT_45443-T1
Valid prediction for snap_scaffold_20-snap.266-T1
Valid prediction for snap_scaffold_20-snap.283-T1
Valid prediction for Augustus_model.g30171.t1
Valid prediction for snap_scaffold_20-snap.267-T1
Valid prediction for GlimmerHMM_glimmerT_45447-T1
Valid prediction for GlimmerHMM_glimmerT_45427-T1
Valid prediction for snap_scaffold_20-snap.280-T1
Valid prediction for snap_scaffold_20-snap.274-T1
Valid prediction for snap_scaffold_20-snap.271-T1
Valid prediction for Augustus_model.g30184.t1
Couldn't classify 215825, 216403
Sorry, prediction pasa_asmbl_25552.p1 fails validation.
(GGA)	 GG	215825-216403	TT	GAT
Valid prediction for snap_scaffold_20-snap.294-T1
Valid prediction for GlimmerHMM_glimmerT_45431-T1
Valid prediction for GlimmerHMM_glimmerT_45424-T1
Valid prediction for snap_scaffold_20-snap.269-T1
Valid prediction for GlimmerHMM_glimmerT_45446-T1
Valid prediction for snap_scaffold_20-snap.288-T1
Couldn't classify 44499, 44858
Sorry, prediction pasa_asmbl_26310.p1 fails validation.
(GAA)	 GA	44499-44858	CG	CCC
Valid prediction for snap_scaffold_20-snap.277-T1
Valid prediction for GlimmerHMM_glimmerT_45448-T1
Valid prediction for Augustus_model.g30186.t1
Valid prediction for GlimmerHMM_glimmerT_45422-T1
Valid prediction for Augustus_model.g30182.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 26931, rend_intergenic: 14636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38950, rend_intergenic: 31729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58833, rend_intergenic: 39984  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71919, rend_intergenic: 58864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87014, rend_intergenic: 73183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90372, rend_intergenic: 87284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99365, rend_intergenic: 91890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103416, rend_intergenic: 99611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128866, rend_intergenic: 106351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136490, rend_intergenic: 133572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141460, rend_intergenic: 139464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173078, rend_intergenic: 155542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183328, rend_intergenic: 180274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191487, rend_intergenic: 188111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193444, rend_intergenic: 192127  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225737, rend_intergenic: 209784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231760, rend_intergenic: 228554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 235114, rend_intergenic: 233026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 237879
-exon list size: 453


building trellis

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-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 26931, rend_intergenic: 14636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38950, rend_intergenic: 31729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58833, rend_intergenic: 39984  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71919, rend_intergenic: 58864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87014, rend_intergenic: 73183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90372, rend_intergenic: 87284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99365, rend_intergenic: 91890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103416, rend_intergenic: 99611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128866, rend_intergenic: 106351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136490, rend_intergenic: 133572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141460, rend_intergenic: 139464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173078, rend_intergenic: 155542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183328, rend_intergenic: 180274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191487, rend_intergenic: 188111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193444, rend_intergenic: 192127  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225737, rend_intergenic: 209784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231760, rend_intergenic: 228554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 235114, rend_intergenic: 233026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 14659
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
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-found 1 predictions from path traversal

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