-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_9/scaffold_9_3631560-3765158

-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_9-snap.789-T1
Valid prediction for GlimmerHMM_glimmerT_21914-T1
Couldn't classify 115054, 115280
Couldn't classify 115791, 115919
Sorry, prediction pasa_asmbl_54764.p1 fails validation.
(TCA)	 CG	115054-115280	GT	AGG
(ACT)	 AG	115584-115695	GT	AGG
(GTG)	 AG	115791-115919	CG	AGC
-recovered pasa_asmbl_54764.p1, internal, 115584, 115695
Valid prediction for Augustus_model.g14573.t1
Valid prediction for GlimmerHMM_glimmerT_21901-T1
Couldn't classify 57680, 57760
Couldn't classify 58653, 58871
Sorry, prediction pasa_asmbl_54684.p1 fails validation.
(AGC)	 AG	57680-57760	GT	AGG
(GTG)	 AG	58653-58871	GA	ATG
-recovered pasa_asmbl_54684.p1, internal, 57680, 57760
Valid prediction for snap_scaffold_9-snap.800-T1
Valid prediction for HiQ_model.g14562.t1
Valid prediction for Augustus_model.g14561.t1
Valid prediction for snap_scaffold_9-snap.806-T1
Valid prediction for snap_scaffold_9-snap.791-T1
Valid prediction for Augustus_model.g14569.t1
Valid prediction for snap_scaffold_9-snap.776-T1
Valid prediction for Augustus_model.g14566.t1
Valid prediction for GlimmerHMM_glimmerT_21898-T1
Valid prediction for GlimmerHMM_glimmerT_21908-T1
Valid prediction for CodingQuarry_transcript_62141-T1
Valid prediction for GlimmerHMM_glimmerT_21907-T1
Valid prediction for snap_scaffold_9-snap.792-T1
Valid prediction for snap_scaffold_9-snap.799-T1
Valid prediction for snap_scaffold_9-snap.774-T1
Valid prediction for Augustus_model.g14572.t1
Valid prediction for GlimmerHMM_glimmerT_21899-T1
Valid prediction for snap_scaffold_9-snap.780-T1
Valid prediction for GlimmerHMM_glimmerT_21893-T1
Valid prediction for snap_scaffold_9-snap.790-T1
Valid prediction for snap_scaffold_9-snap.796-T1
Valid prediction for GlimmerHMM_glimmerT_21894-T1
Valid prediction for snap_scaffold_9-snap.788-T1
Valid prediction for CodingQuarry_transcript_62139-T1
Valid prediction for snap_scaffold_9-snap.783-T1
Valid prediction for GlimmerHMM_glimmerT_21906-T1
Valid prediction for snap_scaffold_9-snap.803-T1
Couldn't classify 119697, 119824
Sorry, prediction pasa_asmbl_53918.p1 fails validation.
(AGC)	 GT	119697-119824	GT	GAG
(GGA)	 AG	120830-120929	GT	AGG
(GTG)	 AG	121234-121339	GT	CGG
(TCC)	 AG	123619-123763	GT	AGG
(CTA)	 AG	124393-124462	GT	AGG
(GCT)	 AG	126819-126911	AC	GAA
-recovered pasa_asmbl_53918.p1, terminal, 126819, 126911
-recovered pasa_asmbl_53918.p1, internal, 120830, 120929
-recovered pasa_asmbl_53918.p1, internal, 121234, 121339
-recovered pasa_asmbl_53918.p1, internal, 123619, 123763
-recovered pasa_asmbl_53918.p1, internal, 124393, 124462
Valid prediction for snap_scaffold_9-snap.778-T1
Couldn't classify 14147, 14278
Couldn't classify 14412, 14624
Sorry, prediction pasa_asmbl_53906.p2 fails validation.
(TCC)	 GT	14147-14278	GT	AGG
(GCG)	 AG	14412-14624	TC	CCT
Valid prediction for snap_scaffold_9-snap.795-T1
Couldn't classify 61048, 61137
Sorry, prediction pasa_asmbl_53915.p1 fails validation.
(AGA)	 GC	61048-61137	GT	CTG
(GTA)	 AG	63065-63166	GT	AGG
(GTT)	 AG	64816-64989	GT	TGG
(GCA)	 AG	65869-65968	GT	GGG
(GAG)	 AG	66452-66632	GT	GGG
(GAT)	 AG	67504-67570	GT	GGG
(AAC)	 AG	67821-67910	CA	AAC
-recovered pasa_asmbl_53915.p1, terminal, 67821, 67910
-recovered pasa_asmbl_53915.p1, internal, 63065, 63166
-recovered pasa_asmbl_53915.p1, internal, 64816, 64989
-recovered pasa_asmbl_53915.p1, internal, 65869, 65968
-recovered pasa_asmbl_53915.p1, internal, 66452, 66632
-recovered pasa_asmbl_53915.p1, internal, 67504, 67570
Valid prediction for snap_scaffold_9-snap.797-T1
Valid prediction for snap_scaffold_9-snap.802-T1
Valid prediction for GlimmerHMM_glimmerT_21902-T1
Valid prediction for snap_scaffold_9-snap.786-T1
Couldn't classify 32186, 32238
Sorry, prediction pasa_asmbl_53907.p1 fails validation.
(TTG)	 TC	32186-32238	GT	AGG
(TCG)	 AG	35054-35387	GG	GAG
-recovered pasa_asmbl_53907.p1, terminal, 35054, 35387
Valid prediction for Augustus_model.g14565.t1
Valid prediction for GlimmerHMM_glimmerT_21912-T1
Valid prediction for CodingQuarry_transcript_62142-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 GlimmerHMM_glimmerT_21903-T1
Valid prediction for snap_scaffold_9-snap.787-T1
Valid prediction for snap_scaffold_9-snap.794-T1
Valid prediction for GlimmerHMM_glimmerT_21911-T1
Valid prediction for GlimmerHMM_glimmerT_21909-T1
Valid prediction for GlimmerHMM_glimmerT_21913-T1
Couldn't classify 36145, 36804
Sorry, prediction pasa_asmbl_54936.p1 fails validation.
(CCT)	 CC	36145-36804	TG	AGT
Valid prediction for GlimmerHMM_glimmerT_21895-T1
Valid prediction for Augustus_model.g14570.t1
Valid prediction for Augustus_model.g14567.t1
Valid prediction for GlimmerHMM_glimmerT_21905-T1
Couldn't classify 31511, 31574
Couldn't classify 32117, 32373
Sorry, prediction pasa_asmbl_54937.p1 fails validation.
(GGG)	 CT	31511-31574	GT	AGG
(GTG)	 AG	32117-32373	GG	AAG
Valid prediction for snap_scaffold_9-snap.773-T1
Valid prediction for GlimmerHMM_glimmerT_21910-T1
Valid prediction for CodingQuarry_transcript_62136-T1
Valid prediction for snap_scaffold_9-snap.805-T1
Valid prediction for GlimmerHMM_glimmerT_21896-T1
Valid prediction for snap_scaffold_9-snap.798-T1
Valid prediction for Augustus_model.g14571.t1
Valid prediction for snap_scaffold_9-snap.793-T1
Valid prediction for snap_scaffold_9-snap.781-T1
Valid prediction for pasa_asmbl_54921.p1
Couldn't classify 131829, 132137
Sorry, prediction pasa_asmbl_54917.p1 fails validation.
(CAC)	 CG	131829-132137	CA	AGC
Valid prediction for Augustus_model.g14564.t1
Valid prediction for snap_scaffold_9-snap.779-T1
Valid prediction for GlimmerHMM_glimmerT_21897-T1
Valid prediction for snap_scaffold_9-snap.785-T1
Valid prediction for CodingQuarry_transcript_62140-T1
Valid prediction for snap_scaffold_9-snap.804-T1
Valid prediction for GlimmerHMM_glimmerT_21900-T1
Valid prediction for snap_scaffold_9-snap.777-T1
Valid prediction for snap_scaffold_9-snap.775-T1
Couldn't classify 97227, 97547
Sorry, prediction pasa_asmbl_53912.p2 fails validation.
(ACT)	 TC	97227-97547	AG	GAA
Valid prediction for Augustus_model.g14560.t1
Valid prediction for snap_scaffold_9-snap.801-T1
Valid prediction for GlimmerHMM_glimmerT_21904-T1
Valid prediction for Augustus_model.g14563.t1
Valid prediction for Augustus_model.g14568.t1
Couldn't classify 60919, 61074
Sorry, prediction pasa_asmbl_54930.p2 fails validation.
(TTG)	 TG	60919-61074	GT	TGG
(GTG)	 AG	61188-61251	GT	CGG
(CGG)	 AG	61372-61493	GT	AGG
(GGC)	 AG	61717-61809	GT	AGG
(GCG)	 AG	61906-61978	GT	TGG
(TGC)	 AG	62116-62186	GT	AGG
(GCA)	 AG	62572-62715	GT	AGG
(CGC)	 AG	62919-63062	GT	AGG
(GAG)	 AG	63497-63589	CA	GAC
-recovered pasa_asmbl_54930.p2, terminal, 63497, 63589
-recovered pasa_asmbl_54930.p2, internal, 61188, 61251
-recovered pasa_asmbl_54930.p2, internal, 61372, 61493
-recovered pasa_asmbl_54930.p2, internal, 61717, 61809
-recovered pasa_asmbl_54930.p2, internal, 61906, 61978
-recovered pasa_asmbl_54930.p2, internal, 62116, 62186
-recovered pasa_asmbl_54930.p2, internal, 62572, 62715
-recovered pasa_asmbl_54930.p2, internal, 62919, 63062
Valid prediction for snap_scaffold_9-snap.782-T1
Valid prediction for snap_scaffold_9-snap.784-T1
Valid prediction for Augustus_model.g14559.t1
Valid prediction for GlimmerHMM_glimmerT_21915-T1
Couldn't classify 29141, 29252
Couldn't classify 29630, 29739
Sorry, prediction pasa_asmbl_54938.p1 fails validation.
(ATG)	 AC	27673-27742	GT	AGG
(GAG)	 AG	28039-28175	GT	GGG
(GAC)	 AG	28530-28625	GT	GGG
(GGA)	 AG	29141-29252	AT	CGA
(GTG)	 AC	29630-29739	GT	AGG
-recovered pasa_asmbl_54938.p1, initial, 27673, 27742
-recovered pasa_asmbl_54938.p1, internal, 28039, 28175
-recovered pasa_asmbl_54938.p1, internal, 28530, 28625

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9794, rend_intergenic: 6973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14038, rend_intergenic: 10750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27174, rend_intergenic: 14055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28715, rend_intergenic: 27757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35387, rend_intergenic: 28757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51032, rend_intergenic: 37151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60314, rend_intergenic: 57227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67242, rend_intergenic: 61018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76870, rend_intergenic: 70268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83721, rend_intergenic: 80052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98707, rend_intergenic: 86241  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106474, rend_intergenic: 100171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107942, rend_intergenic: 106587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112644, rend_intergenic: 108631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129731, rend_intergenic: 117808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 133599
-exon list size: 328


building trellis

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26.1    
26.4    
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27.6    
27.9    
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28.8    
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29.4    
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30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
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64.2    
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65.2    
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66.7    
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86.4    
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87.3    
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88.2    
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90.6    
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97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 9794, rend_intergenic: 6973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14038, rend_intergenic: 10750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27174, rend_intergenic: 14055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28715, rend_intergenic: 27757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35387, rend_intergenic: 28757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51032, rend_intergenic: 37151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60314, rend_intergenic: 57227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67242, rend_intergenic: 61018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76870, rend_intergenic: 70268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83721, rend_intergenic: 80052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98707, rend_intergenic: 86241  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106474, rend_intergenic: 100171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107942, rend_intergenic: 106587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112644, rend_intergenic: 108631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129731, rend_intergenic: 117808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support