-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_17/scaffold_17_2622422-2832920

-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 GlimmerHMM_glimmerT_40846-T1
Valid prediction for pasa_asmbl_17816.p1
Valid prediction for CodingQuarry_transcript_21865-T1
Valid prediction for CodingQuarry_transcript_21866-T1
Valid prediction for GlimmerHMM_glimmerT_40854-T1
Valid prediction for pasa_asmbl_17807.p2
Valid prediction for CodingQuarry_transcript_21871-T1
Valid prediction for HiQ_model.g27338.t1
Valid prediction for snap_scaffold_17-snap.565-T1
Valid prediction for snap_scaffold_17-snap.587-T1
Valid prediction for CodingQuarry_transcript_21863-T1
Valid prediction for GeneMark_model.70328_t
Valid prediction for snap_scaffold_17-snap.560-T1
Couldn't classify 7899, 7943
Sorry, prediction pasa_asmbl_17801.p1 fails validation.
(CGG)	 TG	7899-7943	GT	ACG
(GAA)	 AG	8245-8335	GT	ATG
(TTG)	 AG	8496-8596	GT	AGG
(GGG)	 AG	9488-9586	GT	CAG
(GAA)	 AG	9954-10091	GT	ACG
(ACG)	 AG	10509-10718	GT	TGG
(ATG)	 AG	10926-11084	GT	AGG
(AAA)	 AG	11306-11508	GT	AAG
(TGC)	 AG	11622-11735	GT	AGG
(GTC)	 AG	13732-13753	CT	AAC
-recovered pasa_asmbl_17801.p1, initial, 10926, 11084
-recovered pasa_asmbl_17801.p1, terminal, 13732, 13753
-recovered pasa_asmbl_17801.p1, internal, 8245, 8335
-recovered pasa_asmbl_17801.p1, internal, 8496, 8596
-recovered pasa_asmbl_17801.p1, internal, 9488, 9586
-recovered pasa_asmbl_17801.p1, internal, 9954, 10091
-recovered pasa_asmbl_17801.p1, internal, 10509, 10718
-recovered pasa_asmbl_17801.p1, internal, 10926, 11084
-recovered pasa_asmbl_17801.p1, internal, 11306, 11508
-recovered pasa_asmbl_17801.p1, internal, 11622, 11735
Valid prediction for snap_scaffold_17-snap.584-T1
Valid prediction for GeneMark_model.70339_t
Valid prediction for CodingQuarry_transcript_21867-T1
Valid prediction for GeneMark_model.70320_t
Valid prediction for snap_scaffold_17-snap.574-T1
Valid prediction for HiQ_model.g27344.t1
Valid prediction for GeneMark_model.70323_t
Valid prediction for snap_scaffold_17-snap.559-T1
Valid prediction for GeneMark_model.70345_t
Valid prediction for GlimmerHMM_glimmerT_40836-T1
Valid prediction for GeneMark_model.70333_t
Valid prediction for CodingQuarry_transcript_21862-T1
Valid prediction for Augustus_model.g27352.t1
Valid prediction for GeneMark_model.70326_t
Valid prediction for GlimmerHMM_glimmerT_40858-T1
Valid prediction for CodingQuarry_transcript_21868-T1
Valid prediction for GlimmerHMM_glimmerT_40842-T1
Valid prediction for HiQ_model.g27347.t1
Valid prediction for GeneMark_model.70322_t
Valid prediction for Augustus_model.g27346.t1
Valid prediction for GlimmerHMM_glimmerT_40832-T1
Valid prediction for snap_scaffold_17-snap.564-T1
Valid prediction for pasa_asmbl_17823.p1
Valid prediction for snap_scaffold_17-snap.568-T1
Valid prediction for HiQ_model.g27340.t1
Valid prediction for Augustus_model.g27359.t1
Valid prediction for GlimmerHMM_glimmerT_40837-T1
Valid prediction for snap_scaffold_17-snap.576-T1
Valid prediction for GlimmerHMM_glimmerT_40827-T1
Valid prediction for snap_scaffold_17-snap.556-T1
Valid prediction for snap_scaffold_17-snap.588-T1
Valid prediction for Augustus_model.g27351.t1
Valid prediction for snap_scaffold_17-snap.575-T1
Valid prediction for GlimmerHMM_glimmerT_40831-T1
Valid prediction for snap_scaffold_17-snap.593-T1
Valid prediction for GlimmerHMM_glimmerT_40852-T1
Valid prediction for GlimmerHMM_glimmerT_40844-T1
Valid prediction for GlimmerHMM_glimmerT_40845-T1
Valid prediction for GeneMark_model.70332_t
Valid prediction for GlimmerHMM_glimmerT_40834-T1
Valid prediction for GlimmerHMM_glimmerT_40847-T1
Valid prediction for GlimmerHMM_glimmerT_40833-T1
Valid prediction for Augustus_model.g27345.t1
Valid prediction for snap_scaffold_17-snap.561-T1
Valid prediction for pasa_asmbl_17810.p1
Valid prediction for GeneMark_model.70317_t
Valid prediction for CodingQuarry_transcript_21870-T1
Valid prediction for GeneMark_model.70342_t
Valid prediction for snap_scaffold_17-snap.567-T1
Valid prediction for GeneMark_model.70324_t
Valid prediction for snap_scaffold_17-snap.553-T1
Valid prediction for GeneMark_model.70319_t
Valid prediction for GeneMark_model.70336_t
Valid prediction for Augustus_model.g27342.t1
Valid prediction for GlimmerHMM_glimmerT_40828-T1
Valid prediction for GlimmerHMM_glimmerT_40835-T1
Valid prediction for GlimmerHMM_glimmerT_40840-T1
Valid prediction for GeneMark_model.70343_t
Valid prediction for snap_scaffold_17-snap.586-T1
Valid prediction for GlimmerHMM_glimmerT_40825-T1
Valid prediction for HiQ_model.g27341.t1
Valid prediction for HiQ_model.g27336.t1
Valid prediction for CodingQuarry_transcript_21861-T1
Valid prediction for snap_scaffold_17-snap.555-T1
Valid prediction for GlimmerHMM_glimmerT_40839-T1
Valid prediction for snap_scaffold_17-snap.562-T1
Valid prediction for CodingQuarry_transcript_21869-T1
Couldn't classify 71630, 72091
Sorry, prediction pasa_asmbl_17815.p1 fails validation.
(AGC)	 CC	71630-72091	GG	AGG
Valid prediction for GeneMark_model.70338_t

-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 GlimmerHMM_glimmerT_40851-T1
Valid prediction for snap_scaffold_17-snap.590-T1
Valid prediction for Augustus_model.g27339.t1
Valid prediction for Augustus_model.g27358.t1
Valid prediction for GlimmerHMM_glimmerT_40855-T1
Valid prediction for GlimmerHMM_glimmerT_40830-T1
Valid prediction for snap_scaffold_17-snap.592-T1
Valid prediction for GlimmerHMM_glimmerT_40856-T1
Valid prediction for snap_scaffold_17-snap.589-T1
Valid prediction for snap_scaffold_17-snap.581-T1
Valid prediction for CodingQuarry_transcript_21872-T1
Valid prediction for GeneMark_model.70334_t
Valid prediction for HiQ_model.g27355.t1
Valid prediction for CodingQuarry_transcript_21873-T1
Valid prediction for snap_scaffold_17-snap.580-T1
Valid prediction for GlimmerHMM_glimmerT_40849-T1
Valid prediction for GeneMark_model.70330_t
Valid prediction for CodingQuarry_transcript_21860-T1
Valid prediction for GeneMark_model.70331_t
Valid prediction for Augustus_model.g27357.t1
Valid prediction for snap_scaffold_17-snap.552-T1
Valid prediction for GlimmerHMM_glimmerT_40829-T1
Valid prediction for pasa_asmbl_18815.p1
Valid prediction for HiQ_model.g27348.t1
Valid prediction for GlimmerHMM_glimmerT_40848-T1
Valid prediction for Augustus_model.g27353.t1
Valid prediction for GeneMark_model.70340_t
Valid prediction for GlimmerHMM_glimmerT_40841-T1
Valid prediction for Augustus_model.g27349.t1
Valid prediction for snap_scaffold_17-snap.569-T1
Valid prediction for snap_scaffold_17-snap.582-T1
Valid prediction for GeneMark_model.70335_t
Valid prediction for snap_scaffold_17-snap.591-T1
Valid prediction for GlimmerHMM_glimmerT_40823-T1
Valid prediction for pasa_asmbl_18828.p1
Valid prediction for GlimmerHMM_glimmerT_40850-T1
Valid prediction for GlimmerHMM_glimmerT_40826-T1
Valid prediction for GlimmerHMM_glimmerT_40843-T1
Valid prediction for CodingQuarry_transcript_21864-T1
Couldn't classify 86326, 86727
Sorry, prediction pasa_asmbl_18825.p1 fails validation.
(AGC)	 CT	86326-86727	GT	AGG
(GCT)	 AG	87260-87367	GT	AGG
(CCT)	 AG	87487-87589	GT	TGG
(GGG)	 AG	88256-88417	GT	AGG
(AAC)	 AG	90155-90205	GT	AGG
(TGA)	 AG	90409-90570	GT	AGG
(TGA)	 AG	90895-90975	GT	AGG
(CCT)	 AG	91101-91175	GT	CAG
(ATG)	 AG	91502-91626	GT	AGG
(GTG)	 AG	91881-91985	GT	AGG
(GTG)	 AG	92115-92235	GT	GAG
(AAA)	 AG	92757-92824	AG	GAA
-recovered pasa_asmbl_18825.p1, initial, 91502, 91626
-recovered pasa_asmbl_18825.p1, terminal, 92757, 92824
-recovered pasa_asmbl_18825.p1, internal, 87260, 87367
-recovered pasa_asmbl_18825.p1, internal, 87487, 87589
-recovered pasa_asmbl_18825.p1, internal, 88256, 88417
-recovered pasa_asmbl_18825.p1, internal, 90155, 90205
-recovered pasa_asmbl_18825.p1, internal, 90409, 90570
-recovered pasa_asmbl_18825.p1, internal, 90895, 90975
-recovered pasa_asmbl_18825.p1, internal, 91101, 91175
-recovered pasa_asmbl_18825.p1, internal, 91502, 91626
-recovered pasa_asmbl_18825.p1, internal, 91881, 91985
-recovered pasa_asmbl_18825.p1, internal, 92115, 92235
Valid prediction for snap_scaffold_17-snap.557-T1
Valid prediction for snap_scaffold_17-snap.573-T1
Valid prediction for GeneMark_model.70344_t
Valid prediction for snap_scaffold_17-snap.563-T1
Valid prediction for GeneMark_model.70327_t
Valid prediction for CodingQuarry_transcript_21874-T1
Valid prediction for GlimmerHMM_glimmerT_40853-T1
Valid prediction for GeneMark_model.70318_t
Valid prediction for GlimmerHMM_glimmerT_40857-T1
Valid prediction for GeneMark_model.70325_t
Valid prediction for HiQ_model.g27356.t1
Valid prediction for snap_scaffold_17-snap.554-T1
Valid prediction for HiQ_model.g27354.t1
Valid prediction for HiQ_model.g27337.t1
Valid prediction for GeneMark_model.70316_t
Valid prediction for snap_scaffold_17-snap.585-T1
Valid prediction for CodingQuarry_transcript_21875-T1
Valid prediction for pasa_asmbl_18827.p1
Valid prediction for pasa_asmbl_18814.p1
Valid prediction for GlimmerHMM_glimmerT_40838-T1
Valid prediction for GeneMark_model.70321_t
Valid prediction for snap_scaffold_17-snap.558-T1
Valid prediction for snap_scaffold_17-snap.570-T1
Valid prediction for Augustus_model.g27335.t1
Valid prediction for snap_scaffold_17-snap.571-T1
Valid prediction for GlimmerHMM_glimmerT_40824-T1
Valid prediction for snap_scaffold_17-snap.566-T1
Valid prediction for GeneMark_model.70337_t
Valid prediction for GeneMark_model.70329_t
Valid prediction for snap_scaffold_17-snap.579-T1
Couldn't classify 61025, 61558
Sorry, prediction pasa_asmbl_18833.p1 fails validation.
(CGC)	 TC	61025-61558	CC	GTC
Valid prediction for CodingQuarry_transcript_21876-T1
Valid prediction for Augustus_model.g27360.t1
Valid prediction for snap_scaffold_17-snap.577-T1
Valid prediction for Augustus_model.g27343.t1
Valid prediction for snap_scaffold_17-snap.578-T1
Valid prediction for HiQ_model.g27350.t1
Valid prediction for snap_scaffold_17-snap.572-T1
Valid prediction for pasa_asmbl_18820.p1
Valid prediction for snap_scaffold_17-snap.583-T1
Valid prediction for GeneMark_model.70341_t
Valid prediction for snap_scaffold_17-snap.551-T1
Valid prediction for pasa_asmbl_18830.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 167213, rend_intergenic: 164186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189831, rend_intergenic: 176980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200475, rend_intergenic: 197949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 210499
-exon list size: 509


building trellis

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-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 167213, rend_intergenic: 164186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189831, rend_intergenic: 176980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200475, rend_intergenic: 197949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 29 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 200476 - 210499
-exon list size: 5


building trellis

14.3    
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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