-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_4600490-4756747

-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 CodingQuarry_transcript_21956-T1
Valid prediction for snap_scaffold_17-snap.970-T1
Valid prediction for snap_scaffold_17-snap.969-T1
Valid prediction for HiQ_model.g26785.t1
Valid prediction for snap_scaffold_17-snap.961-T1
Valid prediction for GlimmerHMM_glimmerT_40210-T1
Couldn't classify 82875, 82922
Couldn't classify 84843, 84859
Sorry, prediction pasa_asmbl_18785.p1 fails validation.
(CTG)	 CT	82875-82922	GT	AGG
(GAC)	 AG	83485-83725	GT	GGG
(GGA)	 AG	84238-84439	GT	CAG
(ATG)	 AG	84667-84764	GT	GGG
(GTG)	 AG	84843-84859	GA	TCG
-recovered pasa_asmbl_18785.p1, initial, 84667, 84764
-recovered pasa_asmbl_18785.p1, internal, 83485, 83725
-recovered pasa_asmbl_18785.p1, internal, 84238, 84439
-recovered pasa_asmbl_18785.p1, internal, 84667, 84764
Valid prediction for Augustus_model.g26771.t1
Valid prediction for snap_scaffold_17-snap.989-T1
Valid prediction for GlimmerHMM_glimmerT_40212-T1
Valid prediction for GlimmerHMM_glimmerT_40206-T1
Valid prediction for Augustus_model.g26772.t1
Couldn't classify 47302, 47793
Couldn't classify 47895, 48515
Sorry, prediction pasa_asmbl_18782.p1 fails validation.
(CCA)	 CC	47302-47793	GT	AGG
(GTG)	 AG	47895-48515	GT	GGG
-recovered pasa_asmbl_18782.p1, internal, 47895, 48515
Couldn't classify 81231, 81333
Couldn't classify 82780, 82814
Sorry, prediction pasa_asmbl_18784.p1 fails validation.
(GGA)	 AG	81231-81333	GT	TAG
(CCA)	 AG	81431-81524	GT	AAG
(GAT)	 AG	81675-81799	GT	TGG
(GTA)	 AG	82076-82251	GT	AGG
(ATC)	 AG	82403-82577	GT	CAG
(GTG)	 AG	82780-82814	AG	ACA
-recovered pasa_asmbl_18784.p1, internal, 81231, 81333
-recovered pasa_asmbl_18784.p1, internal, 81431, 81524
-recovered pasa_asmbl_18784.p1, internal, 81675, 81799
-recovered pasa_asmbl_18784.p1, internal, 82076, 82251
-recovered pasa_asmbl_18784.p1, internal, 82403, 82577
Valid prediction for snap_scaffold_17-snap.987-T1
Couldn't classify 84848, 85026
Sorry, prediction pasa_asmbl_18786.p1 fails validation.
(CTG)	 GG	84848-85026	GT	AGG
(GTG)	 AG	85113-85290	GC	AAG
-recovered pasa_asmbl_18786.p1, terminal, 85113, 85290
-recovered pasa_asmbl_18786.p1, internal, 85113, 85290
Valid prediction for CodingQuarry_transcript_21955-T1
Valid prediction for snap_scaffold_17-snap.972-T1
Valid prediction for snap_scaffold_17-snap.967-T1
Valid prediction for snap_scaffold_17-snap.974-T1
Valid prediction for GlimmerHMM_glimmerT_40215-T1
Valid prediction for Augustus_model.g26773.t1
Valid prediction for pasa_asmbl_18791.p1
Valid prediction for GlimmerHMM_glimmerT_40202-T1
Valid prediction for snap_scaffold_17-snap.982-T1
Valid prediction for GlimmerHMM_glimmerT_40218-T1
Valid prediction for GlimmerHMM_glimmerT_40200-T1
Valid prediction for GlimmerHMM_glimmerT_40197-T1
Valid prediction for GlimmerHMM_glimmerT_40214-T1
Valid prediction for GlimmerHMM_glimmerT_40220-T1
Valid prediction for snap_scaffold_17-snap.966-T1
Valid prediction for HiQ_model.g26778.t1
Valid prediction for pasa_asmbl_18792.p1
Valid prediction for GlimmerHMM_glimmerT_40219-T1
Valid prediction for GlimmerHMM_glimmerT_40221-T1
Valid prediction for CodingQuarry_transcript_21959-T1
Valid prediction for GlimmerHMM_glimmerT_40204-T1
Couldn't classify 150043, 150060
Couldn't classify 150413, 150520
Sorry, prediction CodingQuarry_transcript_21961-T1 fails validation.
(ATG)	 TG	150043-150060	CA	CCC
(CAG)	 CA	150413-150520	GT	AGG
(GTA)	 AG	150668-150906	GT	GGG
(CTC)	 AG	151160-151361	GT	AGG
(TTG)	 AG	151476-151620	GT	CGG
(GAG)	 AG	151713-151816	GT	AGG
(GAG)	 AG	151934-152068	GT	AGG
(GTG)	 AG	152226-152429	GT	AGG
(GCC)	 AG	152518-152676	GT	TGG
(GAG)	 AG	152800-152919	GT	AGG
(CTG)	 AG	153021-153293	GT	AGG
(ACA)	 AG	153385-153445	GT	TGG
(ATG)	 AG	153568-153758	AA	AAA
-recovered CodingQuarry_transcript_21961-T1, terminal, 153568, 153758
-recovered CodingQuarry_transcript_21961-T1, internal, 150668, 150906
-recovered CodingQuarry_transcript_21961-T1, internal, 151160, 151361
-recovered CodingQuarry_transcript_21961-T1, internal, 151476, 151620
-recovered CodingQuarry_transcript_21961-T1, internal, 151713, 151816
-recovered CodingQuarry_transcript_21961-T1, internal, 151934, 152068
-recovered CodingQuarry_transcript_21961-T1, internal, 152226, 152429
-recovered CodingQuarry_transcript_21961-T1, internal, 152518, 152676
-recovered CodingQuarry_transcript_21961-T1, internal, 152800, 152919
-recovered CodingQuarry_transcript_21961-T1, internal, 153021, 153293
-recovered CodingQuarry_transcript_21961-T1, internal, 153385, 153445
Valid prediction for pasa_asmbl_18795.p1
Valid prediction for HiQ_model.g26769.t1
Valid prediction for snap_scaffold_17-snap.968-T1
Valid prediction for Augustus_model.g26775.t1
Valid prediction for pasa_asmbl_18793.p1
Valid prediction for HiQ_model.g26784.t1
Valid prediction for snap_scaffold_17-snap.977-T1
Valid prediction for Augustus_model.g26781.t1
Valid prediction for GlimmerHMM_glimmerT_40203-T1
Valid prediction for CodingQuarry_transcript_21960-T1
Valid prediction for CodingQuarry_transcript_21962-T1
Valid prediction for HiQ_model.g26780.t1
Valid prediction for snap_scaffold_17-snap.980-T1
Valid prediction for GlimmerHMM_glimmerT_40208-T1
Valid prediction for snap_scaffold_17-snap.991-T1
Valid prediction for snap_scaffold_17-snap.964-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 pasa_asmbl_17872.p1
Valid prediction for GlimmerHMM_glimmerT_40217-T1
Valid prediction for CodingQuarry_transcript_21952-T1
Valid prediction for CodingQuarry_transcript_21957-T1
Valid prediction for snap_scaffold_17-snap.984-T1
Valid prediction for snap_scaffold_17-snap.981-T1
Valid prediction for HiQ_model.g26770.t1
Valid prediction for pasa_asmbl_17871.p1
Valid prediction for GlimmerHMM_glimmerT_40198-T1
Valid prediction for GlimmerHMM_glimmerT_40213-T1
Valid prediction for snap_scaffold_17-snap.988-T1
Valid prediction for GlimmerHMM_glimmerT_40199-T1
Valid prediction for snap_scaffold_17-snap.971-T1
Valid prediction for GlimmerHMM_glimmerT_40216-T1
Couldn't classify 142829, 142975
Sorry, prediction pasa_asmbl_17870.p1 fails validation.
(CTG)	 TC	142829-142975	GT	ATG
(GTG)	 AG	145610-145702	GT	AGG
(GGT)	 AG	146053-146472	GA	GAG
-recovered pasa_asmbl_17870.p1, terminal, 146053, 146472
-recovered pasa_asmbl_17870.p1, internal, 145610, 145702
Valid prediction for HiQ_model.g26768.t1
Valid prediction for CodingQuarry_transcript_21951-T1
Valid prediction for snap_scaffold_17-snap.979-T1
Valid prediction for GlimmerHMM_glimmerT_40209-T1
Valid prediction for HiQ_model.g26777.t1
Valid prediction for snap_scaffold_17-snap.986-T1
Valid prediction for GlimmerHMM_glimmerT_40211-T1
Valid prediction for snap_scaffold_17-snap.976-T1
Valid prediction for CodingQuarry_transcript_21958-T1
Valid prediction for Augustus_model.g26783.t1
Valid prediction for Augustus_model.g26766.t1
Valid prediction for snap_scaffold_17-snap.975-T1
Valid prediction for HiQ_model.g26779.t1
Couldn't classify 67620, 68036
Sorry, prediction pasa_asmbl_17885.p1 fails validation.
(AGC)	 TC	67620-68036	GA	GGG
Valid prediction for GlimmerHMM_glimmerT_40196-T1
Valid prediction for snap_scaffold_17-snap.978-T1
Valid prediction for pasa_asmbl_18783.p1
Couldn't classify 68145, 68273
Sorry, prediction pasa_asmbl_17883.p1 fails validation.
(GGT)	 AC	68145-68273	GT	AGG
(GCT)	 AG	68395-68605	GT	AGG
(GTC)	 AG	68766-68958	GT	TGG
(GTT)	 AG	69133-69457	CA	GAC
-recovered pasa_asmbl_17883.p1, terminal, 69133, 69457
-recovered pasa_asmbl_17883.p1, internal, 68395, 68605
-recovered pasa_asmbl_17883.p1, internal, 68766, 68958
Valid prediction for snap_scaffold_17-snap.990-T1
Valid prediction for HiQ_model.g26782.t1
Valid prediction for snap_scaffold_17-snap.962-T1
Valid prediction for snap_scaffold_17-snap.963-T1
Valid prediction for GlimmerHMM_glimmerT_40205-T1
Valid prediction for snap_scaffold_17-snap.983-T1
Valid prediction for pasa_asmbl_17882.p1
Valid prediction for pasa_asmbl_17888.p1
Valid prediction for GlimmerHMM_glimmerT_40201-T1
Valid prediction for HiQ_model.g26774.t1
Valid prediction for snap_scaffold_17-snap.960-T1
Valid prediction for CodingQuarry_transcript_21950-T1
Couldn't classify 66025, 66044
Couldn't classify 67219, 67532
Sorry, prediction pasa_asmbl_17886.p1 fails validation.
(ACC)	 AA	66025-66044	GT	AGG
(GTC)	 AG	66450-66700	GT	AGG
(GTA)	 AG	66862-67128	GT	AGG
(GTG)	 AG	67219-67532	GA	TGG
-recovered pasa_asmbl_17886.p1, internal, 66450, 66700
-recovered pasa_asmbl_17886.p1, internal, 66862, 67128
Valid prediction for HiQ_model.g26776.t1
Valid prediction for pasa_asmbl_17874.p1
Valid prediction for snap_scaffold_17-snap.973-T1
Valid prediction for snap_scaffold_17-snap.985-T1
Valid prediction for snap_scaffold_17-snap.965-T1
Valid prediction for CodingQuarry_transcript_21953-T1
Valid prediction for GlimmerHMM_glimmerT_40207-T1
Valid prediction for CodingQuarry_transcript_21954-T1
Valid prediction for Augustus_model.g26767.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15074, rend_intergenic: 9787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38665, rend_intergenic: 33316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54327, rend_intergenic: 50850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76039, rend_intergenic: 64963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83349, rend_intergenic: 80996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85547, rend_intergenic: 83443  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97311, rend_intergenic: 91401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112876, rend_intergenic: 103383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124542, rend_intergenic: 116763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139921, rend_intergenic: 126203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145847, rend_intergenic: 142427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156258
-exon list size: 398


building trellis

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-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 15074, rend_intergenic: 9787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38665, rend_intergenic: 33316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54327, rend_intergenic: 50850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76039, rend_intergenic: 64963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83349, rend_intergenic: 80996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85547, rend_intergenic: 83443  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97311, rend_intergenic: 91401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112876, rend_intergenic: 103383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124542, rend_intergenic: 116763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139921, rend_intergenic: 126203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145847, rend_intergenic: 142427  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