-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_17/scaffold_17_1-199071

-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 GeneMark_model.69616_t
Valid prediction for GlimmerHMM_glimmerT_40453-T1
Valid prediction for GlimmerHMM_glimmerT_40448-T1
Valid prediction for GeneMark_model.69620_t
Valid prediction for GeneMark_model.69653_t
Valid prediction for GlimmerHMM_glimmerT_40439-T1
Valid prediction for GeneMark_model.69612_t
Valid prediction for snap_scaffold_17-snap.22-T1
Valid prediction for snap_scaffold_17-snap.7-T1
Valid prediction for snap_scaffold_17-snap.14-T1
Valid prediction for Augustus_model.g27101.t1
Valid prediction for snap_scaffold_17-snap.6-T1
Valid prediction for Augustus_model.g27094.t1
Valid prediction for Augustus_model.g27095.t1
Valid prediction for Augustus_model.g27100.t1
Valid prediction for GeneMark_model.69642_t
Valid prediction for snap_scaffold_17-snap.21-T1
Valid prediction for GeneMark_model.69638_t
Valid prediction for snap_scaffold_17-snap.23-T1
Valid prediction for Augustus_model.g27096.t1
Valid prediction for Augustus_model.g27110.t1
Valid prediction for GeneMark_model.69633_t
Valid prediction for GlimmerHMM_glimmerT_40462-T1
Valid prediction for snap_scaffold_17-snap.5-T1
Valid prediction for GeneMark_model.69635_t
Valid prediction for GlimmerHMM_glimmerT_40458-T1
Valid prediction for GeneMark_model.69619_t
Valid prediction for GlimmerHMM_glimmerT_40442-T1
Valid prediction for snap_scaffold_17-snap.25-T1
Valid prediction for GlimmerHMM_glimmerT_40438-T1
Valid prediction for GlimmerHMM_glimmerT_40451-T1
Valid prediction for Augustus_model.g27109.t1
Valid prediction for GeneMark_model.69628_t
Valid prediction for GeneMark_model.69650_t
Valid prediction for GeneMark_model.69640_t
Valid prediction for GeneMark_model.69644_t
Valid prediction for GeneMark_model.69613_t
Valid prediction for snap_scaffold_17-snap.33-T1
Valid prediction for snap_scaffold_17-snap.1-T1
Valid prediction for snap_scaffold_17-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_40459-T1
Valid prediction for GeneMark_model.69632_t
Valid prediction for snap_scaffold_17-snap.18-T1
Valid prediction for Augustus_model.g27103.t1
Valid prediction for GlimmerHMM_glimmerT_40437-T1
Valid prediction for GeneMark_model.69630_t
Valid prediction for GeneMark_model.69611_t
Valid prediction for snap_scaffold_17-snap.16-T1
Valid prediction for snap_scaffold_17-snap.13-T1
Valid prediction for GlimmerHMM_glimmerT_40444-T1
Valid prediction for snap_scaffold_17-snap.24-T1
Valid prediction for GeneMark_model.69623_t
Valid prediction for Augustus_model.g27098.t1
Valid prediction for snap_scaffold_17-snap.2-T1
Couldn't classify 3510, 3606
Sorry, prediction pasa_asmbl_17657.p1 fails validation.
(CGG)	 GG	3510-3606	GT	AGG
(TGA)	 AG	4096-4409	CT	AAC
-recovered pasa_asmbl_17657.p1, terminal, 4096, 4409
Valid prediction for GeneMark_model.69646_t
Valid prediction for GlimmerHMM_glimmerT_40446-T1
Valid prediction for snap_scaffold_17-snap.28-T1
Valid prediction for snap_scaffold_17-snap.4-T1
Valid prediction for GlimmerHMM_glimmerT_40455-T1
Valid prediction for GeneMark_model.69618_t
Valid prediction for snap_scaffold_17-snap.20-T1
Couldn't classify 19737, 20118
Sorry, prediction pasa_asmbl_17661.p1 fails validation.
(GGA)	 AG	19737-20118	GT	AAG
(GTA)	 AG	20539-20694	GT	CAG
(ACA)	 AG	21270-21413	GT	AGG
(CTC)	 AG	21650-21882	GC	AAG
-recovered pasa_asmbl_17661.p1, terminal, 21650, 21882
-recovered pasa_asmbl_17661.p1, internal, 19737, 20118
-recovered pasa_asmbl_17661.p1, internal, 20539, 20694
-recovered pasa_asmbl_17661.p1, internal, 21270, 21413
-recovered pasa_asmbl_17661.p1, internal, 21650, 21882
Valid prediction for snap_scaffold_17-snap.30-T1
Valid prediction for GlimmerHMM_glimmerT_40465-T1
Valid prediction for GeneMark_model.69651_t
Valid prediction for GlimmerHMM_glimmerT_40464-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.17-T1
Valid prediction for GlimmerHMM_glimmerT_40461-T1
Valid prediction for GlimmerHMM_glimmerT_40440-T1
Valid prediction for Augustus_model.g27105.t1
Valid prediction for GeneMark_model.69629_t
Valid prediction for GlimmerHMM_glimmerT_40441-T1
Valid prediction for GlimmerHMM_glimmerT_40463-T1
Valid prediction for GlimmerHMM_glimmerT_40457-T1
Valid prediction for GlimmerHMM_glimmerT_40443-T1
Valid prediction for GlimmerHMM_glimmerT_40460-T1
Valid prediction for GeneMark_model.69652_t
Valid prediction for GeneMark_model.69634_t
Valid prediction for snap_scaffold_17-snap.11-T1
Valid prediction for snap_scaffold_17-snap.31-T1
Valid prediction for GeneMark_model.69626_t
Valid prediction for snap_scaffold_17-snap.12-T1
Valid prediction for GeneMark_model.69648_t
Valid prediction for snap_scaffold_17-snap.27-T1
Valid prediction for GeneMark_model.69639_t
Valid prediction for GeneMark_model.69627_t
Valid prediction for GeneMark_model.69617_t
Valid prediction for Augustus_model.g27099.t1
Valid prediction for GeneMark_model.69649_t
Valid prediction for GeneMark_model.69631_t
Valid prediction for Augustus_model.g27107.t1
Valid prediction for snap_scaffold_17-snap.15-T1
Valid prediction for GeneMark_model.69615_t
Valid prediction for Augustus_model.g27104.t1
Valid prediction for Augustus_model.g27097.t1
Valid prediction for snap_scaffold_17-snap.26-T1
Valid prediction for GlimmerHMM_glimmerT_40456-T1
Valid prediction for GeneMark_model.69636_t
Valid prediction for snap_scaffold_17-snap.8-T1
Valid prediction for GeneMark_model.69622_t
Valid prediction for GlimmerHMM_glimmerT_40445-T1
Valid prediction for GeneMark_model.69625_t
Valid prediction for GlimmerHMM_glimmerT_40447-T1
Valid prediction for snap_scaffold_17-snap.32-T1
Valid prediction for Augustus_model.g27102.t1
Valid prediction for GlimmerHMM_glimmerT_40450-T1
Valid prediction for snap_scaffold_17-snap.19-T1
Valid prediction for GlimmerHMM_glimmerT_40449-T1
Valid prediction for Augustus_model.g27106.t1
Valid prediction for Augustus_model.g27108.t1
Valid prediction for GeneMark_model.69643_t
Valid prediction for GeneMark_model.69647_t
Valid prediction for GlimmerHMM_glimmerT_40452-T1
Valid prediction for snap_scaffold_17-snap.29-T1
Valid prediction for GeneMark_model.69641_t
Valid prediction for GlimmerHMM_glimmerT_40454-T1
Valid prediction for GeneMark_model.69654_t
Valid prediction for GeneMark_model.69621_t
Valid prediction for snap_scaffold_17-snap.9-T1
Valid prediction for snap_scaffold_17-snap.10-T1
Valid prediction for GeneMark_model.69645_t
Valid prediction for GeneMark_model.69624_t
Valid prediction for GeneMark_model.69614_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 99256, rend_intergenic: 93757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134028, rend_intergenic: 130332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154303, rend_intergenic: 145202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186722, rend_intergenic: 180881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195995, rend_intergenic: 187921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199071
-exon list size: 439


building trellis

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31.7    
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36.3    
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42.9    
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45.8    
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50.8    
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56.0    
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82.8    
83.0    
83.2    
83.4    
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83.9    
84.1    
84.4    
84.6    
84.8    
85.0    
85.3    
85.5    
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85.9    
86.2    
86.4    
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86.8    
87.1    
87.3    
87.5    
87.8    
88.0    
88.2    
88.4    
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88.9    
89.1    
89.3    
89.6    
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90.0    
90.2    
90.5    
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90.9    
91.2    
91.4    
91.6    
91.8    
92.1    
92.3    
92.5    
92.7    
93.0    
93.2    
93.4    
93.7    
93.9    
94.1    
94.3    
94.6    
94.8    
95.0    
95.2    
95.5    
95.7    
95.9    
96.1    
96.4    
96.6    
96.8    
97.1    
97.3    
97.5    
97.7    
98.0    
98.2    
98.4    
98.6    
98.9    
99.1    
99.3    
99.5    
99.8    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 99256, rend_intergenic: 93757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134028, rend_intergenic: 130332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154303, rend_intergenic: 145202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186722, rend_intergenic: 180881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195995, rend_intergenic: 187921  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

-building DP trellis

-building trellis in range 188010 - 199071
-exon list size: 31


building trellis

3.0    
6.1    
9.1    
12.1    
15.2    
18.2    
21.2    
24.2    
27.3    
30.3    
33.3    
36.4    
39.4    
42.4    
45.5    
48.5    
51.5    
54.5    
57.6    
60.6    
63.6    
66.7    
69.7    
72.7    
75.8    
78.8    
81.8    
84.8    
87.9    
90.9    
93.9    
97.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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