-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_14115087-14295416

-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_17-snap.2945-T1
Valid prediction for GlimmerHMM_glimmerT_41462-T1
Valid prediction for snap_scaffold_17-snap.2940-T1
Valid prediction for snap_scaffold_17-snap.2931-T1
Valid prediction for snap_scaffold_17-snap.2934-T1
Valid prediction for snap_scaffold_17-snap.2941-T1
Valid prediction for Augustus_model.g27630.t1
Valid prediction for GlimmerHMM_glimmerT_41453-T1
Valid prediction for snap_scaffold_17-snap.2925-T1
Valid prediction for snap_scaffold_17-snap.2936-T1
Valid prediction for GlimmerHMM_glimmerT_41452-T1
Valid prediction for snap_scaffold_17-snap.2921-T1
Valid prediction for snap_scaffold_17-snap.2943-T1
Valid prediction for snap_scaffold_17-snap.2958-T1
Valid prediction for snap_scaffold_17-snap.2952-T1
Valid prediction for snap_scaffold_17-snap.2954-T1
Valid prediction for snap_scaffold_17-snap.2947-T1
Valid prediction for Augustus_model.g27629.t1
Valid prediction for GlimmerHMM_glimmerT_41465-T1
Valid prediction for Augustus_model.g27627.t1
Valid prediction for snap_scaffold_17-snap.2917-T1
Valid prediction for snap_scaffold_17-snap.2926-T1
Valid prediction for snap_scaffold_17-snap.2939-T1
Valid prediction for GlimmerHMM_glimmerT_41463-T1
Valid prediction for GlimmerHMM_glimmerT_41464-T1
Valid prediction for snap_scaffold_17-snap.2927-T1
Valid prediction for GlimmerHMM_glimmerT_41466-T1
Valid prediction for GlimmerHMM_glimmerT_41459-T1
Valid prediction for snap_scaffold_17-snap.2918-T1
Valid prediction for GlimmerHMM_glimmerT_41461-T1
Valid prediction for GlimmerHMM_glimmerT_41450-T1
Valid prediction for GlimmerHMM_glimmerT_41471-T1
Valid prediction for snap_scaffold_17-snap.2935-T1
Valid prediction for snap_scaffold_17-snap.2923-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.g27631.t1
Valid prediction for snap_scaffold_17-snap.2937-T1
Valid prediction for GlimmerHMM_glimmerT_41449-T1
Valid prediction for CodingQuarry_transcript_22257-T1
Valid prediction for snap_scaffold_17-snap.2950-T1
Valid prediction for GlimmerHMM_glimmerT_41469-T1
Valid prediction for GlimmerHMM_glimmerT_41458-T1
Valid prediction for GlimmerHMM_glimmerT_41470-T1
Valid prediction for GlimmerHMM_glimmerT_41454-T1
Valid prediction for Augustus_model.g27624.t1
Valid prediction for GlimmerHMM_glimmerT_41456-T1
Valid prediction for GlimmerHMM_glimmerT_41457-T1
Valid prediction for GlimmerHMM_glimmerT_41472-T1
Valid prediction for GlimmerHMM_glimmerT_41474-T1
Valid prediction for snap_scaffold_17-snap.2924-T1
Valid prediction for snap_scaffold_17-snap.2920-T1
Valid prediction for snap_scaffold_17-snap.2946-T1
Valid prediction for snap_scaffold_17-snap.2949-T1
Valid prediction for CodingQuarry_transcript_22258-T1
Valid prediction for snap_scaffold_17-snap.2938-T1
Valid prediction for Augustus_model.g27626.t1
Valid prediction for GlimmerHMM_glimmerT_41473-T1
Valid prediction for GlimmerHMM_glimmerT_41455-T1
Couldn't classify 168209, 168271
Couldn't classify 173744, 173908
Sorry, prediction pasa_asmbl_18411.p1 fails validation.
(GAT)	 CA	168209-168271	GT	AGG
(CAC)	 AG	169664-169678	GT	AGG
(GCT)	 AG	170565-170654	GT	TGG
(CCA)	 AG	171151-171186	GT	TGG
(CCC)	 AG	172323-172400	GT	AGG
(GTG)	 AG	172634-172726	GT	AGG
(ATC)	 AG	173744-173908	AG	ACA
-recovered pasa_asmbl_18411.p1, internal, 169664, 169678
-recovered pasa_asmbl_18411.p1, internal, 170565, 170654
-recovered pasa_asmbl_18411.p1, internal, 171151, 171186
-recovered pasa_asmbl_18411.p1, internal, 172323, 172400
-recovered pasa_asmbl_18411.p1, internal, 172634, 172726
Valid prediction for snap_scaffold_17-snap.2922-T1
Valid prediction for snap_scaffold_17-snap.2914-T1
Valid prediction for GlimmerHMM_glimmerT_41460-T1
Valid prediction for pasa_asmbl_18417.p1
Valid prediction for snap_scaffold_17-snap.2955-T1
Valid prediction for Augustus_model.g27628.t1
Valid prediction for snap_scaffold_17-snap.2933-T1
Valid prediction for snap_scaffold_17-snap.2919-T1
Valid prediction for snap_scaffold_17-snap.2928-T1
Valid prediction for snap_scaffold_17-snap.2953-T1
Valid prediction for snap_scaffold_17-snap.2944-T1
Couldn't classify 24385, 24426
Sorry, prediction pasa_asmbl_18419.p1 fails validation.
(ATG)	 AA	14960-15089	GT	AGG
(ATC)	 AG	15170-15344	GT	GGG
(TTT)	 AG	15680-15820	GT	TGG
(GGC)	 AG	16228-16299	GT	ATG
(GTT)	 AG	16391-16442	GT	TGG
(CTG)	 AG	17606-17788	GT	AGG
(GTG)	 AG	18559-18666	GT	AGG
(CTG)	 AG	19152-19304	GT	AGG
(GCA)	 AG	19906-20006	GT	GGG
(AGA)	 AG	20115-20256	GT	AGG
(GTG)	 AG	20498-20568	GT	AGG
(GAC)	 AG	20682-20857	GT	TGG
(CCT)	 AG	22442-22602	GT	AGG
(TGG)	 AG	22711-22821	GT	AGG
(GAC)	 AG	23131-23335	GT	TGG
(ACC)	 AG	23563-23684	GT	AGG
(CTG)	 AG	23839-24023	GT	AGG
(GAG)	 AG	24267-24300	GT	GGG
(GAG)	 AG	24385-24426	CT	GTC
-recovered pasa_asmbl_18419.p1, initial, 14960, 15089
-recovered pasa_asmbl_18419.p1, internal, 15170, 15344
-recovered pasa_asmbl_18419.p1, internal, 15680, 15820
-recovered pasa_asmbl_18419.p1, internal, 16228, 16299
-recovered pasa_asmbl_18419.p1, internal, 16391, 16442
-recovered pasa_asmbl_18419.p1, internal, 17606, 17788
-recovered pasa_asmbl_18419.p1, internal, 18559, 18666
-recovered pasa_asmbl_18419.p1, internal, 19152, 19304
-recovered pasa_asmbl_18419.p1, internal, 19906, 20006
-recovered pasa_asmbl_18419.p1, internal, 20115, 20256
-recovered pasa_asmbl_18419.p1, internal, 20498, 20568
-recovered pasa_asmbl_18419.p1, internal, 20682, 20857
-recovered pasa_asmbl_18419.p1, internal, 22442, 22602
-recovered pasa_asmbl_18419.p1, internal, 22711, 22821
-recovered pasa_asmbl_18419.p1, internal, 23131, 23335
-recovered pasa_asmbl_18419.p1, internal, 23563, 23684
-recovered pasa_asmbl_18419.p1, internal, 23839, 24023
-recovered pasa_asmbl_18419.p1, internal, 24267, 24300
Valid prediction for HiQ_model.g27633.t1
Valid prediction for Augustus_model.g27632.t1
Valid prediction for snap_scaffold_17-snap.2956-T1
Valid prediction for Augustus_model.g27634.t1
Valid prediction for GlimmerHMM_glimmerT_41468-T1
Valid prediction for snap_scaffold_17-snap.2916-T1
Valid prediction for Augustus_model.g27625.t1
Valid prediction for snap_scaffold_17-snap.2957-T1
Valid prediction for snap_scaffold_17-snap.2942-T1
Valid prediction for snap_scaffold_17-snap.2948-T1
Couldn't classify 91345, 91527
Couldn't classify 95347, 95465
Sorry, prediction pasa_asmbl_18415.p1 fails validation.
(GAC)	 AG	91345-91527	GT	AGG
(CCC)	 AG	92555-92738	GT	GGG
(GTG)	 AG	93568-93750	GT	CGG
(ACC)	 AG	95347-95465	GT	GGG
-recovered pasa_asmbl_18415.p1, internal, 91345, 91527
-recovered pasa_asmbl_18415.p1, internal, 92555, 92738
-recovered pasa_asmbl_18415.p1, internal, 93568, 93750
-recovered pasa_asmbl_18415.p1, internal, 95347, 95465
Valid prediction for snap_scaffold_17-snap.2932-T1
Valid prediction for GlimmerHMM_glimmerT_41467-T1
Valid prediction for snap_scaffold_17-snap.2959-T1
Valid prediction for snap_scaffold_17-snap.2930-T1
Valid prediction for snap_scaffold_17-snap.2915-T1
Valid prediction for GlimmerHMM_glimmerT_41451-T1
Valid prediction for CodingQuarry_transcript_22256-T1
Valid prediction for snap_scaffold_17-snap.2951-T1
Valid prediction for snap_scaffold_17-snap.2929-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12907, rend_intergenic: 10702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22960, rend_intergenic: 20351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34373, rend_intergenic: 29617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41129, rend_intergenic: 36040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55156, rend_intergenic: 44552  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58670, rend_intergenic: 55520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81975, rend_intergenic: 75895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89410, rend_intergenic: 82060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102106, rend_intergenic: 98664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104335, rend_intergenic: 102851  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126421, rend_intergenic: 113985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132107, rend_intergenic: 128232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142423, rend_intergenic: 135427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158011, rend_intergenic: 156630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160503, rend_intergenic: 158092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162828, rend_intergenic: 160829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174463, rend_intergenic: 171388  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 180330
-exon list size: 427


building trellis

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97.9    
98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 12907, rend_intergenic: 10702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22960, rend_intergenic: 20351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34373, rend_intergenic: 29617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41129, rend_intergenic: 36040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55156, rend_intergenic: 44552  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58670, rend_intergenic: 55520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81975, rend_intergenic: 75895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89410, rend_intergenic: 82060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102106, rend_intergenic: 98664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104335, rend_intergenic: 102851  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126421, rend_intergenic: 113985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132107, rend_intergenic: 128232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142423, rend_intergenic: 135427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158011, rend_intergenic: 156630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160503, rend_intergenic: 158092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162828, rend_intergenic: 160829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174463, rend_intergenic: 171388  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support