-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_10275459-10551752

-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_17986-T1
Valid prediction for Augustus_model.g12089.t1
Valid prediction for snap_scaffold_7-snap.1976-T1
Valid prediction for HiQ_model.g12087.t1
Valid prediction for snap_scaffold_7-snap.1985-T1
Valid prediction for snap_scaffold_7-snap.1971-T1
Valid prediction for snap_scaffold_7-snap.2006-T1
Valid prediction for snap_scaffold_7-snap.1991-T1
Valid prediction for Augustus_model.g12091.t1
Valid prediction for snap_scaffold_7-snap.2004-T1
Valid prediction for snap_scaffold_7-snap.2007-T1
Valid prediction for GlimmerHMM_glimmerT_17997-T1
Valid prediction for pasa_asmbl_50113.p1
Valid prediction for snap_scaffold_7-snap.1972-T1
Valid prediction for Augustus_model.g12084.t1
Valid prediction for Augustus_model.g12101.t1
Valid prediction for snap_scaffold_7-snap.2014-T1
Valid prediction for snap_scaffold_7-snap.1981-T1
Valid prediction for GlimmerHMM_glimmerT_17994-T1
Valid prediction for CodingQuarry_transcript_57620-T1
Valid prediction for GlimmerHMM_glimmerT_18008-T1
Valid prediction for GlimmerHMM_glimmerT_17988-T1
Valid prediction for HiQ_model.g12085.t1
Valid prediction for GlimmerHMM_glimmerT_17985-T1
Valid prediction for snap_scaffold_7-snap.1996-T1
Couldn't classify 79297, 79432
Couldn't classify 80156, 80217
Sorry, prediction pasa_asmbl_50115.p1 fails validation.
(AGT)	 TC	79297-79432	GT	CAG
(GTG)	 AG	79574-79774	GT	GAG
(ACC)	 AG	79898-80062	GT	AAG
(CGC)	 AG	80156-80217	GG	AAG
-recovered pasa_asmbl_50115.p1, internal, 79574, 79774
-recovered pasa_asmbl_50115.p1, internal, 79898, 80062
Valid prediction for GlimmerHMM_glimmerT_17996-T1
Valid prediction for snap_scaffold_7-snap.1980-T1
Valid prediction for snap_scaffold_7-snap.2012-T1
Valid prediction for Augustus_model.g12097.t1
Valid prediction for Augustus_model.g12096.t1
Valid prediction for pasa_asmbl_50129.p1
Valid prediction for GlimmerHMM_glimmerT_18004-T1
Valid prediction for Augustus_model.g12108.t1
Valid prediction for snap_scaffold_7-snap.1978-T1
Valid prediction for snap_scaffold_7-snap.2001-T1
Valid prediction for GlimmerHMM_glimmerT_17987-T1
Valid prediction for snap_scaffold_7-snap.1970-T1
Valid prediction for Augustus_model.g12109.t1
Valid prediction for snap_scaffold_7-snap.2008-T1
Valid prediction for GlimmerHMM_glimmerT_17992-T1
Valid prediction for Augustus_model.g12093.t1
Valid prediction for pasa_asmbl_50103.p1
Couldn't classify 40530, 40586
Sorry, prediction pasa_asmbl_50112.p2 fails validation.
(GCT)	 AA	40530-40586	GT	TGG
(ATG)	 AG	40709-40727	GT	AGG
(ATG)	 AG	41146-41420	AA	GAA
-recovered pasa_asmbl_50112.p2, initial, 40709, 40727
-recovered pasa_asmbl_50112.p2, terminal, 41146, 41420
-recovered pasa_asmbl_50112.p2, internal, 40709, 40727
Valid prediction for CodingQuarry_transcript_57613-T1
Valid prediction for HiQ_model.g12114.t1
Valid prediction for Augustus_model.g12110.t1
Valid prediction for GlimmerHMM_glimmerT_18000-T1
Valid prediction for Augustus_model.g12106.t1
Valid prediction for GlimmerHMM_glimmerT_18007-T1
Valid prediction for snap_scaffold_7-snap.1998-T1
Valid prediction for snap_scaffold_7-snap.2005-T1
Valid prediction for snap_scaffold_7-snap.1983-T1
Couldn't classify 22963, 23045
Sorry, prediction pasa_asmbl_50108.p1 fails validation.
(ATC)	 AT	22963-23045	GT	CGG
(GTT)	 AG	23231-23275	GT	CTG
(CTG)	 AG	23370-23413	GT	AGG
(TTG)	 AG	23639-23877	GT	AGG
(GGA)	 AG	24048-24189	GT	CAG
(ACC)	 AG	26234-26400	GT	AGG
(GAC)	 AG	26677-26940	GT	AGG
(GTG)	 AG	27094-27279	AA	GAA
-recovered pasa_asmbl_50108.p1, terminal, 27094, 27279
-recovered pasa_asmbl_50108.p1, internal, 23231, 23275
-recovered pasa_asmbl_50108.p1, internal, 23370, 23413
-recovered pasa_asmbl_50108.p1, internal, 23639, 23877
-recovered pasa_asmbl_50108.p1, internal, 24048, 24189
-recovered pasa_asmbl_50108.p1, internal, 26234, 26400
-recovered pasa_asmbl_50108.p1, internal, 26677, 26940
Valid prediction for Augustus_model.g12086.t1
Valid prediction for GlimmerHMM_glimmerT_17999-T1
Valid prediction for GlimmerHMM_glimmerT_18012-T1
Valid prediction for snap_scaffold_7-snap.1988-T1
Couldn't classify 129010, 129115
Sorry, prediction pasa_asmbl_50118.p1 fails validation.
(TTT)	 GG	129010-129115	GT	AGG
(TCC)	 AG	131792-131875	GT	AGG
(AGG)	 AG	133576-133693	GT	AGG
(GTA)	 AG	133849-134180	GT	TGG
(GCT)	 AG	134283-134332	GT	TGG
(GGA)	 AG	134458-134577	GT	ATG
(GTG)	 AG	134695-136644	GA	AGG
-recovered pasa_asmbl_50118.p1, terminal, 134695, 136644
-recovered pasa_asmbl_50118.p1, internal, 131792, 131875
-recovered pasa_asmbl_50118.p1, internal, 133576, 133693
-recovered pasa_asmbl_50118.p1, internal, 133849, 134180
-recovered pasa_asmbl_50118.p1, internal, 134283, 134332
-recovered pasa_asmbl_50118.p1, internal, 134458, 134577
Valid prediction for snap_scaffold_7-snap.1974-T1
Valid prediction for GlimmerHMM_glimmerT_17990-T1
Valid prediction for Augustus_model.g12105.t1
Valid prediction for snap_scaffold_7-snap.2002-T1
Valid prediction for GlimmerHMM_glimmerT_18006-T1
Valid prediction for Augustus_model.g12104.t1
Couldn't classify 49220, 49717
Sorry, prediction pasa_asmbl_50114.p1 fails validation.
(TAT)	 TC	49220-49717	TT	AGT
Valid prediction for snap_scaffold_7-snap.1975-T1
Valid prediction for HiQ_model.g12083.t1
Valid prediction for snap_scaffold_7-snap.1973-T1
Couldn't classify 40038, 40095
Sorry, prediction pasa_asmbl_50111.p1 fails validation.
(ATG)	 CA	38777-38815	GT	TGG
(TGT)	 AG	39246-39384	GT	TGG
(GTC)	 AG	39556-39690	GT	AGG
(CTA)	 AG	39818-39935	GT	ACG
(GTG)	 AG	40038-40095	GA	ATG
-recovered pasa_asmbl_50111.p1, initial, 38777, 38815
-recovered pasa_asmbl_50111.p1, internal, 39246, 39384
-recovered pasa_asmbl_50111.p1, internal, 39556, 39690
-recovered pasa_asmbl_50111.p1, internal, 39818, 39935
Valid prediction for Augustus_model.g12107.t1
Valid prediction for snap_scaffold_7-snap.1992-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: -)Couldn't classify 187485, 187664
Sorry, prediction pasa_asmbl_51123.p1 fails validation.
(ATG)	 GC	185298-186482	GT	AGG
(GAC)	 AG	186676-186806	GT	AGG
(GCG)	 AG	187156-187279	GT	CAG
(GGG)	 AG	187485-187664	GT	AGG
-recovered pasa_asmbl_51123.p1, initial, 185298, 186482
-recovered pasa_asmbl_51123.p1, internal, 186676, 186806
-recovered pasa_asmbl_51123.p1, internal, 187156, 187279
-recovered pasa_asmbl_51123.p1, internal, 187485, 187664
Valid prediction for CodingQuarry_transcript_57619-T1
Valid prediction for HiQ_model.g12113.t1
Valid prediction for Augustus_model.g12111.t1
Valid prediction for CodingQuarry_transcript_57614-T1
Valid prediction for GlimmerHMM_glimmerT_18003-T1
Valid prediction for HiQ_model.g12092.t1
Valid prediction for snap_scaffold_7-snap.1989-T1
Valid prediction for pasa_asmbl_51131.p1
Valid prediction for GlimmerHMM_glimmerT_18010-T1
Valid prediction for snap_scaffold_7-snap.1997-T1
Valid prediction for GlimmerHMM_glimmerT_18002-T1
Valid prediction for Augustus_model.g12100.t1
Valid prediction for snap_scaffold_7-snap.1979-T1
Valid prediction for CodingQuarry_transcript_57616-T1
Valid prediction for snap_scaffold_7-snap.1999-T1
Valid prediction for GlimmerHMM_glimmerT_18009-T1
Valid prediction for pasa_asmbl_51128.p1
Valid prediction for GlimmerHMM_glimmerT_18005-T1
Valid prediction for HiQ_model.g12090.t1
Valid prediction for CodingQuarry_transcript_57617-T1
Valid prediction for Augustus_model.g12102.t1
Valid prediction for snap_scaffold_7-snap.1995-T1
Valid prediction for snap_scaffold_7-snap.2011-T1
Valid prediction for GlimmerHMM_glimmerT_17991-T1
Valid prediction for Augustus_model.g12099.t1
Valid prediction for snap_scaffold_7-snap.1993-T1
Valid prediction for pasa_asmbl_51118.p1
Valid prediction for snap_scaffold_7-snap.2010-T1
Valid prediction for CodingQuarry_transcript_57618-T1
Valid prediction for GlimmerHMM_glimmerT_17989-T1
Valid prediction for Augustus_model.g12094.t1
Valid prediction for snap_scaffold_7-snap.1987-T1
Valid prediction for snap_scaffold_7-snap.1977-T1
Valid prediction for snap_scaffold_7-snap.2003-T1
Valid prediction for snap_scaffold_7-snap.2013-T1
Valid prediction for GlimmerHMM_glimmerT_17998-T1
Valid prediction for snap_scaffold_7-snap.2009-T1
Valid prediction for pasa_asmbl_51116.p1
Valid prediction for snap_scaffold_7-snap.1994-T1
Valid prediction for CodingQuarry_transcript_57615-T1
Couldn't classify 191429, 191558
Sorry, prediction pasa_asmbl_51122.p1 fails validation.
(GAG)	 AG	191429-191558	GT	AGG
(CTC)	 AG	191764-191888	GT	AGG
(GAG)	 AG	192027-192218	GT	AGG
(TTT)	 AG	192368-192493	GT	AGG
(AAT)	 AG	192614-192727	GT	AGG
(GCT)	 AG	192907-193053	CC	AAC
-recovered pasa_asmbl_51122.p1, terminal, 192907, 193053
-recovered pasa_asmbl_51122.p1, internal, 191429, 191558
-recovered pasa_asmbl_51122.p1, internal, 191764, 191888
-recovered pasa_asmbl_51122.p1, internal, 192027, 192218
-recovered pasa_asmbl_51122.p1, internal, 192368, 192493
-recovered pasa_asmbl_51122.p1, internal, 192614, 192727
Valid prediction for Augustus_model.g12103.t1
Valid prediction for snap_scaffold_7-snap.1982-T1
Valid prediction for snap_scaffold_7-snap.1984-T1
Valid prediction for GlimmerHMM_glimmerT_18011-T1
Valid prediction for GlimmerHMM_glimmerT_17995-T1
Valid prediction for snap_scaffold_7-snap.1990-T1
Valid prediction for GlimmerHMM_glimmerT_18001-T1
Valid prediction for HiQ_model.g12112.t1
Valid prediction for snap_scaffold_7-snap.1986-T1
Valid prediction for Augustus_model.g12088.t1
Valid prediction for Augustus_model.g12098.t1
Valid prediction for HiQ_model.g12115.t1
Valid prediction for snap_scaffold_7-snap.2000-T1
Valid prediction for CodingQuarry_transcript_57621-T1
Valid prediction for Augustus_model.g12095.t1
Valid prediction for GlimmerHMM_glimmerT_17993-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 71713, rend_intergenic: 70603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210565, rend_intergenic: 208936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 276294
-exon list size: 469


building trellis

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99.4    
99.6    
99.8    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 71713, rend_intergenic: 70603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210565, rend_intergenic: 208936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 33 predictions persist after filtering for low support