-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_5166774-5344337

-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_21-snap.1039-T1
Valid prediction for Augustus_model.g31770.t1
Valid prediction for snap_scaffold_21-snap.1026-T1
Valid prediction for Augustus_model.g31769.t1
Valid prediction for HiQ_model.g31768.t1
Valid prediction for GlimmerHMM_glimmerT_47647-T1
Couldn't classify 12588, 12962
Sorry, prediction pasa_asmbl_28554.p1 fails validation.
(CCA)	 CA	12588-12962	AC	ACA
Valid prediction for GlimmerHMM_glimmerT_47652-T1
Valid prediction for snap_scaffold_21-snap.1043-T1
Valid prediction for snap_scaffold_21-snap.1018-T1
Valid prediction for snap_scaffold_21-snap.1047-T1
Valid prediction for snap_scaffold_21-snap.1049-T1
Valid prediction for GlimmerHMM_glimmerT_47658-T1
Valid prediction for snap_scaffold_21-snap.1058-T1
Valid prediction for snap_scaffold_21-snap.1040-T1
Valid prediction for pasa_asmbl_28557.p1
Valid prediction for snap_scaffold_21-snap.1038-T1
Valid prediction for CodingQuarry_transcript_32526-T1
Valid prediction for GlimmerHMM_glimmerT_47664-T1
Valid prediction for snap_scaffold_21-snap.1019-T1
Valid prediction for Augustus_model.g31767.t1
Valid prediction for snap_scaffold_21-snap.1022-T1
Valid prediction for snap_scaffold_21-snap.1033-T1
Valid prediction for snap_scaffold_21-snap.1029-T1
Valid prediction for GlimmerHMM_glimmerT_47668-T1
Valid prediction for snap_scaffold_21-snap.1056-T1
Valid prediction for snap_scaffold_21-snap.1024-T1
Valid prediction for Augustus_model.g31780.t1
Valid prediction for snap_scaffold_21-snap.1037-T1
Valid prediction for snap_scaffold_21-snap.1050-T1
Valid prediction for Augustus_model.g31772.t1
Valid prediction for Augustus_model.g31776.t1
Valid prediction for snap_scaffold_21-snap.1021-T1
Valid prediction for GlimmerHMM_glimmerT_47649-T1
Valid prediction for GlimmerHMM_glimmerT_47648-T1
Couldn't classify 73554, 73680
Couldn't classify 73821, 74311
Sorry, prediction pasa_asmbl_28563.p1 fails validation.
(GTG)	 AG	73554-73680	GT	AGG
(GGG)	 AG	73821-74311	AT	GCA
-recovered pasa_asmbl_28563.p1, internal, 73554, 73680
Valid prediction for snap_scaffold_21-snap.1032-T1
Valid prediction for pasa_asmbl_28556.p1
Valid prediction for snap_scaffold_21-snap.1055-T1
Valid prediction for snap_scaffold_21-snap.1045-T1
Valid prediction for snap_scaffold_21-snap.1035-T1
Couldn't classify 44734, 44945
Sorry, prediction pasa_asmbl_28560.p1 fails validation.
(AAC)	 AG	44734-44945	GT	AGG
(CCC)	 AG	45679-45839	GT	AGG
(GTG)	 AG	48594-48738	GT	GTG
(AGG)	 AG	49554-49758	GC	GAG
-recovered pasa_asmbl_28560.p1, terminal, 49554, 49758
-recovered pasa_asmbl_28560.p1, internal, 44734, 44945
-recovered pasa_asmbl_28560.p1, internal, 45679, 45839
-recovered pasa_asmbl_28560.p1, internal, 48594, 48738
-recovered pasa_asmbl_28560.p1, internal, 49554, 49758
Valid prediction for snap_scaffold_21-snap.1053-T1
Valid prediction for snap_scaffold_21-snap.1027-T1
Couldn't classify 13095, 13442
Sorry, prediction pasa_asmbl_28555.p1 fails validation.
(TTA)	 AC	13095-13442	CA	AGC
Valid prediction for snap_scaffold_21-snap.1052-T1
Valid prediction for Augustus_model.g31773.t1
Valid prediction for GlimmerHMM_glimmerT_47654-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 CodingQuarry_transcript_32532-T1
Valid prediction for pasa_asmbl_27644.p1
Valid prediction for Augustus_model.g31783.t1
Valid prediction for Augustus_model.g31775.t1
Valid prediction for CodingQuarry_transcript_32529-T1
Valid prediction for GlimmerHMM_glimmerT_47661-T1
Valid prediction for HiQ_model.g31777.t1
Valid prediction for GlimmerHMM_glimmerT_47666-T1
Valid prediction for snap_scaffold_21-snap.1031-T1
Couldn't classify 49719, 49833
Couldn't classify 50124, 50326
Sorry, prediction pasa_asmbl_28236.p2 fails validation.
(TAC)	 AC	49719-49833	GT	AGG
(GTT)	 AG	50124-50326	AT	CCA
Valid prediction for snap_scaffold_21-snap.1036-T1
Valid prediction for snap_scaffold_21-snap.1034-T1
Valid prediction for CodingQuarry_transcript_32530-T1
Valid prediction for snap_scaffold_21-snap.1023-T1
Valid prediction for GlimmerHMM_glimmerT_47653-T1
Valid prediction for HiQ_model.g31766.t1
Valid prediction for GlimmerHMM_glimmerT_47651-T1
Valid prediction for pasa_asmbl_27635.p1
Valid prediction for CodingQuarry_transcript_32531-T1
Valid prediction for Augustus_model.g31784.t1
Valid prediction for snap_scaffold_21-snap.1042-T1
Valid prediction for HiQ_model.g31778.t1
Valid prediction for Augustus_model.g31771.t1
Valid prediction for snap_scaffold_21-snap.1048-T1
Valid prediction for Augustus_model.g31781.t1
Valid prediction for pasa_asmbl_27636.p1
Valid prediction for GlimmerHMM_glimmerT_47667-T1
Valid prediction for Augustus_model.g31774.t1
Valid prediction for GlimmerHMM_glimmerT_47659-T1
Valid prediction for GlimmerHMM_glimmerT_47657-T1
Valid prediction for snap_scaffold_21-snap.1020-T1
Valid prediction for GlimmerHMM_glimmerT_47656-T1
Valid prediction for GlimmerHMM_glimmerT_47650-T1
Valid prediction for snap_scaffold_21-snap.1051-T1
Valid prediction for snap_scaffold_21-snap.1028-T1
Valid prediction for snap_scaffold_21-snap.1030-T1
Valid prediction for snap_scaffold_21-snap.1041-T1
Valid prediction for snap_scaffold_21-snap.1025-T1
Valid prediction for snap_scaffold_21-snap.1046-T1
Valid prediction for GlimmerHMM_glimmerT_47662-T1
Valid prediction for GlimmerHMM_glimmerT_47660-T1
Valid prediction for GlimmerHMM_glimmerT_47646-T1
Valid prediction for CodingQuarry_transcript_32525-T1
Valid prediction for snap_scaffold_21-snap.1054-T1
Valid prediction for GlimmerHMM_glimmerT_47655-T1
Valid prediction for snap_scaffold_21-snap.1017-T1
Valid prediction for GlimmerHMM_glimmerT_47663-T1
Couldn't classify 84490, 84563
Sorry, prediction pasa_asmbl_27628.p1 fails validation.
(GAG)	 GA	84490-84563	GT	AGG
(TCT)	 AG	84768-84918	GT	AGG
(TGG)	 AG	85100-85310	GT	AGG
(TGG)	 AG	85478-85634	GT	AGG
(GTC)	 AG	85761-85883	GT	AGG
(TTG)	 AG	86016-86143	GT	CCG
(GAG)	 AG	86314-86449	GT	AGG
(CAA)	 AG	86541-86685	GT	AGG
(ACT)	 AG	86801-87014	GT	AGG
(ACA)	 AG	87122-87359	GT	AAG
(AGT)	 AG	87537-87614	GT	CTG
(GTC)	 AG	87751-87937	GT	ACG
(TTG)	 AG	88148-88319	GT	GAG
(AGA)	 AG	88514-88734	GT	CCG
(GTG)	 AG	88862-89056	GT	AGG
(AAC)	 AG	90480-90647	GT	TGG
(TAC)	 AG	90865-90927	TA	AAT
-recovered pasa_asmbl_27628.p1, terminal, 90865, 90927
-recovered pasa_asmbl_27628.p1, internal, 84768, 84918
-recovered pasa_asmbl_27628.p1, internal, 85100, 85310
-recovered pasa_asmbl_27628.p1, internal, 85478, 85634
-recovered pasa_asmbl_27628.p1, internal, 85761, 85883
-recovered pasa_asmbl_27628.p1, internal, 86016, 86143
-recovered pasa_asmbl_27628.p1, internal, 86314, 86449
-recovered pasa_asmbl_27628.p1, internal, 86541, 86685
-recovered pasa_asmbl_27628.p1, internal, 86801, 87014
-recovered pasa_asmbl_27628.p1, internal, 87122, 87359
-recovered pasa_asmbl_27628.p1, internal, 87537, 87614
-recovered pasa_asmbl_27628.p1, internal, 87751, 87937
-recovered pasa_asmbl_27628.p1, internal, 88148, 88319
-recovered pasa_asmbl_27628.p1, internal, 88514, 88734
-recovered pasa_asmbl_27628.p1, internal, 88862, 89056
-recovered pasa_asmbl_27628.p1, internal, 90480, 90647
Valid prediction for CodingQuarry_transcript_32527-T1
Couldn't classify 80354, 80389
Sorry, prediction pasa_asmbl_27633.p1 fails validation.
(ATG)	 AG	79429-79470	GT	GGG
(CCT)	 AG	79806-80012	GT	AGG
(GCG)	 AG	80162-80260	GT	TGG
(GAC)	 AG	80354-80389	GC	AGG
-recovered pasa_asmbl_27633.p1, initial, 79429, 79470
-recovered pasa_asmbl_27633.p1, internal, 79429, 79470
-recovered pasa_asmbl_27633.p1, internal, 79806, 80012
-recovered pasa_asmbl_27633.p1, internal, 80162, 80260
-recovered pasa_asmbl_27633.p1, internal, 80354, 80389
Valid prediction for Augustus_model.g31782.t1
Couldn't classify 81987, 82025
Couldn't classify 82543, 82755
Sorry, prediction pasa_asmbl_27630.p1 fails validation.
(CAA)	 AG	81987-82025	GT	AGG
(CTC)	 AG	82137-82394	GT	AGG
(GTG)	 AG	82543-82755	CT	AGC
-recovered pasa_asmbl_27630.p1, internal, 81987, 82025
-recovered pasa_asmbl_27630.p1, internal, 82137, 82394
Valid prediction for CodingQuarry_transcript_32528-T1
Valid prediction for GlimmerHMM_glimmerT_47665-T1
Valid prediction for HiQ_model.g31779.t1
Valid prediction for snap_scaffold_21-snap.1044-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for pasa_asmbl_27621.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 33916, rend_intergenic: 30737  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38104, rend_intergenic: 34739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58324, rend_intergenic: 55775  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64400, rend_intergenic: 61097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81065, rend_intergenic: 75049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85396, rend_intergenic: 81264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98136, rend_intergenic: 86884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115338, rend_intergenic: 112800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118612, rend_intergenic: 115584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121374, rend_intergenic: 119623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131601, rend_intergenic: 123915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144002, rend_intergenic: 133763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166355, rend_intergenic: 150801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 177564
-exon list size: 473


building trellis

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33.9    
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34.9    
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35.8    
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99.6    
99.8    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 33916, rend_intergenic: 30737  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38104, rend_intergenic: 34739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58324, rend_intergenic: 55775  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64400, rend_intergenic: 61097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81065, rend_intergenic: 75049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85396, rend_intergenic: 81264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98136, rend_intergenic: 86884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115338, rend_intergenic: 112800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118612, rend_intergenic: 115584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121374, rend_intergenic: 119623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131601, rend_intergenic: 123915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144002, rend_intergenic: 133763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166355, rend_intergenic: 150801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support