-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_3190255-3379160

-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: +)Couldn't classify 67253, 67580
Couldn't classify 69533, 69549
Sorry, prediction pasa_asmbl_19520.p2 fails validation.
(GGT)	 TG	67253-67580	GT	AGG
(AGC)	 AG	69533-69549	CA	TCC
Valid prediction for GlimmerHMM_glimmerT_40032-T1
Couldn't classify 104212, 104384
Sorry, prediction pasa_asmbl_18715.p1 fails validation.
(GAC)	 CG	104212-104384	GT	GGG
(GAA)	 AG	104593-104668	GT	GAG
(ATC)	 AG	104788-104871	GT	AGG
(CAG)	 AG	105039-105123	GT	AGG
(GTT)	 AG	105447-106147	AC	GAA
-recovered pasa_asmbl_18715.p1, terminal, 105447, 106147
-recovered pasa_asmbl_18715.p1, internal, 104593, 104668
-recovered pasa_asmbl_18715.p1, internal, 104788, 104871
-recovered pasa_asmbl_18715.p1, internal, 105039, 105123
Couldn't classify 22705, 22801
Couldn't classify 23541, 23785
Sorry, prediction pasa_asmbl_19478.p2 fails validation.
(GAG)	 CG	22705-22801	GT	CGG
(AGG)	 AG	23541-23785	CC	AGC
Couldn't classify 71121, 71222
Sorry, prediction pasa_asmbl_18714.p1 fails validation.
(CTA)	 CA	71121-71222	GT	TGG
(GTG)	 AG	71652-71963	CC	AGC
-recovered pasa_asmbl_18714.p1, terminal, 71652, 71963
Valid prediction for snap_scaffold_17-snap.694-T1
Valid prediction for snap_scaffold_17-snap.674-T1
Valid prediction for snap_scaffold_17-snap.683-T1
Valid prediction for snap_scaffold_17-snap.706-T1
Valid prediction for snap_scaffold_17-snap.700-T1
Valid prediction for GlimmerHMM_glimmerT_40012-T1
Valid prediction for Augustus_model.g26653.t1
Valid prediction for Augustus_model.g26659.t1
Valid prediction for snap_scaffold_17-snap.685-T1
Valid prediction for Augustus_model.g26654.t1
Valid prediction for GlimmerHMM_glimmerT_40011-T1
Couldn't classify 182502, 182786
Couldn't classify 183050, 183154
Sorry, prediction pasa_asmbl_18719.p1 fails validation.
(GCG)	 AT	182502-182786	GT	AGG
(TGT)	 AG	183050-183154	GA	AGG
Valid prediction for GlimmerHMM_glimmerT_40025-T1
Valid prediction for Augustus_model.g26657.t1
Valid prediction for snap_scaffold_17-snap.682-T1
Valid prediction for GlimmerHMM_glimmerT_40019-T1
Valid prediction for snap_scaffold_17-snap.675-T1
Valid prediction for snap_scaffold_17-snap.698-T1
Valid prediction for GlimmerHMM_glimmerT_40007-T1
Valid prediction for Augustus_model.g26646.t1
Valid prediction for snap_scaffold_17-snap.680-T1
Valid prediction for snap_scaffold_17-snap.704-T1
Valid prediction for Augustus_model.g26649.t1
Valid prediction for HiQ_model.g26655.t1
Valid prediction for snap_scaffold_17-snap.693-T1
Valid prediction for GlimmerHMM_glimmerT_40030-T1
Couldn't classify 127087, 127175
Sorry, prediction pasa_asmbl_19440.p2 fails validation.
(GTC)	 AC	127087-127175	GT	AGG
(ACT)	 AG	127564-127660	GT	ACG
(GGT)	 AG	127826-127975	GT	AGG
(CTG)	 AG	128120-128303	GT	GGG
(ATG)	 AG	128555-128649	TG	GAT
-recovered pasa_asmbl_19440.p2, terminal, 128555, 128649
-recovered pasa_asmbl_19440.p2, internal, 127564, 127660
-recovered pasa_asmbl_19440.p2, internal, 127826, 127975
-recovered pasa_asmbl_19440.p2, internal, 128120, 128303
Valid prediction for Augustus_model.g26648.t1
Valid prediction for Augustus_model.g26658.t1
Valid prediction for GlimmerHMM_glimmerT_40027-T1
Valid prediction for GlimmerHMM_glimmerT_40021-T1
Valid prediction for GlimmerHMM_glimmerT_40017-T1
Valid prediction for GlimmerHMM_glimmerT_40015-T1
Valid prediction for snap_scaffold_17-snap.688-T1
Valid prediction for Augustus_model.g26660.t1
Couldn't classify 59669, 60184
Sorry, prediction pasa_asmbl_18712.p2 fails validation.
(ATG)	 AA	59669-60184	AA	AGA
Valid prediction for GlimmerHMM_glimmerT_40022-T1
Valid prediction for snap_scaffold_17-snap.702-T1
Valid prediction for snap_scaffold_17-snap.677-T1
Valid prediction for GlimmerHMM_glimmerT_40008-T1
Couldn't classify 28687, 28824
Sorry, prediction pasa_asmbl_18709.p3 fails validation.
(CAG)	 TC	28687-28824	GT	CTG
(GCC)	 AG	29054-29151	GT	AGG
(CCG)	 AG	30005-30119	AT	GAA
-recovered pasa_asmbl_18709.p3, terminal, 30005, 30119
-recovered pasa_asmbl_18709.p3, internal, 29054, 29151
Valid prediction for snap_scaffold_17-snap.708-T1
Valid prediction for snap_scaffold_17-snap.678-T1
Valid prediction for snap_scaffold_17-snap.695-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 snap_scaffold_17-snap.707-T1
Valid prediction for Augustus_model.g26650.t1
Valid prediction for snap_scaffold_17-snap.692-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_40024-T1
Valid prediction for GlimmerHMM_glimmerT_40010-T1
Valid prediction for GlimmerHMM_glimmerT_40004-T1
Valid prediction for GlimmerHMM_glimmerT_40028-T1
Valid prediction for snap_scaffold_17-snap.705-T1
Valid prediction for GlimmerHMM_glimmerT_40031-T1
Valid prediction for GlimmerHMM_glimmerT_40023-T1
Valid prediction for GlimmerHMM_glimmerT_40016-T1
Valid prediction for snap_scaffold_17-snap.696-T1
Valid prediction for snap_scaffold_17-snap.679-T1
Valid prediction for snap_scaffold_17-snap.681-T1
Valid prediction for GlimmerHMM_glimmerT_40020-T1
Valid prediction for snap_scaffold_17-snap.697-T1
Valid prediction for GlimmerHMM_glimmerT_40006-T1
Valid prediction for GlimmerHMM_glimmerT_40014-T1
Valid prediction for GlimmerHMM_glimmerT_40013-T1
Valid prediction for snap_scaffold_17-snap.701-T1
Valid prediction for GlimmerHMM_glimmerT_40026-T1
Valid prediction for snap_scaffold_17-snap.684-T1
Valid prediction for snap_scaffold_17-snap.690-T1
Valid prediction for snap_scaffold_17-snap.676-T1
Valid prediction for snap_scaffold_17-snap.691-T1
Valid prediction for Augustus_model.g26651.t1
Couldn't classify 141676, 141786
Sorry, prediction pasa_asmbl_17808.p1 fails validation.
(GGT)	 CA	141676-141786	GT	AGG
(GTG)	 AG	141999-142147	GT	GCG
(CTA)	 AG	143356-143457	GT	AGG
(GAA)	 AG	145398-145446	GT	AGG
(ACG)	 AG	145874-145996	GA	GAG
-recovered pasa_asmbl_17808.p1, terminal, 145874, 145996
-recovered pasa_asmbl_17808.p1, internal, 141999, 142147
-recovered pasa_asmbl_17808.p1, internal, 143356, 143457
-recovered pasa_asmbl_17808.p1, internal, 145398, 145446
Valid prediction for snap_scaffold_17-snap.689-T1
Valid prediction for GlimmerHMM_glimmerT_40005-T1
Valid prediction for snap_scaffold_17-snap.699-T1
Valid prediction for snap_scaffold_17-snap.673-T1
Valid prediction for Augustus_model.g26652.t1
Valid prediction for snap_scaffold_17-snap.703-T1
Valid prediction for snap_scaffold_17-snap.687-T1
Valid prediction for GlimmerHMM_glimmerT_40029-T1
Valid prediction for snap_scaffold_17-snap.709-T1
Valid prediction for Augustus_model.g26647.t1
Valid prediction for snap_scaffold_17-snap.686-T1
Valid prediction for GlimmerHMM_glimmerT_40018-T1
Valid prediction for snap_scaffold_17-snap.710-T1
Valid prediction for GlimmerHMM_glimmerT_40009-T1
Valid prediction for Augustus_model.g26656.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11179, rend_intergenic: 9276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18045, rend_intergenic: 12300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20155, rend_intergenic: 18129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28192, rend_intergenic: 24960  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52347, rend_intergenic: 43398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71963, rend_intergenic: 64580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78854, rend_intergenic: 78348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101784, rend_intergenic: 82452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112177, rend_intergenic: 110336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137254, rend_intergenic: 135048  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141465, rend_intergenic: 139451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150724, rend_intergenic: 142159  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155744, rend_intergenic: 151743  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165084, rend_intergenic: 158609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186424, rend_intergenic: 170981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 188906
-exon list size: 344


building trellis

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91.9    
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93.6    
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94.5    
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96.2    
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97.1    
97.4    
97.7    
98.0    
98.3    
98.6    
98.8    
99.1    
99.4    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 11179, rend_intergenic: 9276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18045, rend_intergenic: 12300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20155, rend_intergenic: 18129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28192, rend_intergenic: 24960  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52347, rend_intergenic: 43398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71963, rend_intergenic: 64580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78854, rend_intergenic: 78348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101784, rend_intergenic: 82452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112177, rend_intergenic: 110336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137254, rend_intergenic: 135048  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141465, rend_intergenic: 139451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150724, rend_intergenic: 142159  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155744, rend_intergenic: 151743  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165084, rend_intergenic: 158609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186424, rend_intergenic: 170981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11014
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support