-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_15702638-15903342

-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 Augustus_model.g20325.t1
Valid prediction for snap_scaffold_12-snap.3008-T1
Valid prediction for GlimmerHMM_glimmerT_30716-T1
Valid prediction for snap_scaffold_12-snap.3022-T1
Valid prediction for snap_scaffold_12-snap.3007-T1
Valid prediction for snap_scaffold_12-snap.3005-T1
Valid prediction for GlimmerHMM_glimmerT_30715-T1
Valid prediction for GlimmerHMM_glimmerT_30726-T1
Valid prediction for Augustus_model.g20322.t1
Valid prediction for GlimmerHMM_glimmerT_30719-T1
Valid prediction for GlimmerHMM_glimmerT_30702-T1
Valid prediction for snap_scaffold_12-snap.3015-T1
Valid prediction for snap_scaffold_12-snap.3041-T1
Valid prediction for GlimmerHMM_glimmerT_30721-T1
Valid prediction for GlimmerHMM_glimmerT_30709-T1
Valid prediction for snap_scaffold_12-snap.3021-T1
Valid prediction for snap_scaffold_12-snap.3011-T1
Valid prediction for pasa_asmbl_8137.p1
Valid prediction for snap_scaffold_12-snap.3014-T1
Valid prediction for GlimmerHMM_glimmerT_30700-T1
Valid prediction for Augustus_model.g20316.t1
Valid prediction for GlimmerHMM_glimmerT_30729-T1
Valid prediction for Augustus_model.g20320.t1
Valid prediction for GlimmerHMM_glimmerT_30713-T1
Valid prediction for HiQ_model.g20326.t1
Valid prediction for GlimmerHMM_glimmerT_30701-T1
Valid prediction for CodingQuarry_transcript_10508-T1
Valid prediction for snap_scaffold_12-snap.3017-T1
Valid prediction for snap_scaffold_12-snap.3038-T1
Valid prediction for GlimmerHMM_glimmerT_30725-T1
Valid prediction for snap_scaffold_12-snap.3029-T1
Valid prediction for Augustus_model.g20317.t1
Valid prediction for snap_scaffold_12-snap.3030-T1
Valid prediction for Augustus_model.g20321.t1
Valid prediction for GlimmerHMM_glimmerT_30711-T1
Valid prediction for pasa_asmbl_8138.p1
Valid prediction for GlimmerHMM_glimmerT_30708-T1
Valid prediction for snap_scaffold_12-snap.3016-T1
Valid prediction for GlimmerHMM_glimmerT_30728-T1
Valid prediction for GlimmerHMM_glimmerT_30724-T1
Valid prediction for CodingQuarry_transcript_10507-T1
Valid prediction for snap_scaffold_12-snap.3013-T1
Valid prediction for snap_scaffold_12-snap.3027-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_30730-T1
Valid prediction for pasa_asmbl_9100.p1
Valid prediction for HiQ_model.g20327.t1
Valid prediction for snap_scaffold_12-snap.3023-T1
Valid prediction for Augustus_model.g20333.t1
Valid prediction for Augustus_model.g20319.t1
Valid prediction for snap_scaffold_12-snap.3033-T1
Valid prediction for GlimmerHMM_glimmerT_30710-T1
Valid prediction for Augustus_model.g20330.t1
Valid prediction for snap_scaffold_12-snap.3020-T1
Valid prediction for snap_scaffold_12-snap.3035-T1
Valid prediction for GlimmerHMM_glimmerT_30714-T1
Valid prediction for GlimmerHMM_glimmerT_30707-T1
Valid prediction for Augustus_model.g20329.t1
Valid prediction for snap_scaffold_12-snap.3026-T1
Valid prediction for snap_scaffold_12-snap.3032-T1
Valid prediction for GlimmerHMM_glimmerT_30712-T1
Valid prediction for GlimmerHMM_glimmerT_30704-T1
Valid prediction for snap_scaffold_12-snap.3019-T1
Valid prediction for Augustus_model.g20332.t1
Valid prediction for snap_scaffold_12-snap.3040-T1
Valid prediction for GlimmerHMM_glimmerT_30723-T1
Valid prediction for snap_scaffold_12-snap.3025-T1
Valid prediction for GlimmerHMM_glimmerT_30706-T1
Valid prediction for Augustus_model.g20324.t1
Valid prediction for Augustus_model.g20318.t1
Valid prediction for snap_scaffold_12-snap.3031-T1
Valid prediction for GlimmerHMM_glimmerT_30717-T1
Valid prediction for GlimmerHMM_glimmerT_30720-T1
Valid prediction for snap_scaffold_12-snap.3024-T1
Valid prediction for snap_scaffold_12-snap.3009-T1
Valid prediction for snap_scaffold_12-snap.3028-T1
Valid prediction for GlimmerHMM_glimmerT_30731-T1
Valid prediction for snap_scaffold_12-snap.3006-T1
Valid prediction for snap_scaffold_12-snap.3039-T1
Valid prediction for GlimmerHMM_glimmerT_30727-T1
Valid prediction for snap_scaffold_12-snap.3012-T1
Valid prediction for GlimmerHMM_glimmerT_30705-T1
Valid prediction for snap_scaffold_12-snap.3037-T1
Valid prediction for snap_scaffold_12-snap.3034-T1
Valid prediction for Augustus_model.g20323.t1
Valid prediction for snap_scaffold_12-snap.3036-T1
Valid prediction for snap_scaffold_12-snap.3042-T1
Valid prediction for Augustus_model.g20328.t1
Valid prediction for GlimmerHMM_glimmerT_30718-T1
Valid prediction for snap_scaffold_12-snap.3043-T1
Valid prediction for CodingQuarry_transcript_10509-T1
Valid prediction for snap_scaffold_12-snap.3018-T1
Couldn't classify 149268, 149399
Couldn't classify 149889, 150155
Sorry, prediction pasa_asmbl_9255.p1 fails validation.
(AAT)	 AC	149268-149399	GT	AGG
(GTC)	 AG	149889-150155	GA	AGG
Valid prediction for pasa_asmbl_9098.p1
Valid prediction for Augustus_model.g20331.t1
Couldn't classify 150930, 151531
Sorry, prediction pasa_asmbl_9099.p1 fails validation.
(TTA)	 GT	150930-151531	GT	AGG
(CTG)	 AG	151649-151799	CC	GAC
-recovered pasa_asmbl_9099.p1, terminal, 151649, 151799
Valid prediction for GlimmerHMM_glimmerT_30722-T1
Valid prediction for snap_scaffold_12-snap.3010-T1
Valid prediction for GlimmerHMM_glimmerT_30703-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 20328, rend_intergenic: 15664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98888, rend_intergenic: 97328  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172961, rend_intergenic: 168037  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 200705
-exon list size: 261


building trellis

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1.1    
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2.3    
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16.0    
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18.3    
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27.8    
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30.0    
30.4    
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33.8    
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34.6    
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36.1    
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37.3    
37.6    
38.0    
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38.8    
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40.3    
40.7    
41.1    
41.4    
41.8    
42.2    
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43.0    
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44.9    
45.2    
45.6    
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46.4    
46.8    
47.1    
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47.9    
48.3    
48.7    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.3    
51.7    
52.1    
52.5    
52.9    
53.2    
53.6    
54.0    
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54.8    
55.1    
55.5    
55.9    
56.3    
56.7    
57.0    
57.4    
57.8    
58.2    
58.6    
58.9    
59.3    
59.7    
60.1    
60.5    
60.8    
61.2    
61.6    
62.0    
62.4    
62.7    
63.1    
63.5    
63.9    
64.3    
64.6    
65.0    
65.4    
65.8    
66.2    
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67.3    
67.7    
68.1    
68.4    
68.8    
69.2    
69.6    
70.0    
70.3    
70.7    
71.1    
71.5    
71.9    
72.2    
72.6    
73.0    
73.4    
73.8    
74.1    
74.5    
74.9    
75.3    
75.7    
76.0    
76.4    
76.8    
77.2    
77.6    
77.9    
78.3    
78.7    
79.1    
79.5    
79.8    
80.2    
80.6    
81.0    
81.4    
81.7    
82.1    
82.5    
82.9    
83.3    
83.7    
84.0    
84.4    
84.8    
85.2    
85.6    
85.9    
86.3    
86.7    
87.1    
87.5    
87.8    
88.2    
88.6    
89.0    
89.4    
89.7    
90.1    
90.5    
90.9    
91.3    
91.6    
92.0    
92.4    
92.8    
93.2    
93.5    
93.9    
94.3    
94.7    
95.1    
95.4    
95.8    
96.2    
96.6    
97.0    
97.3    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 20328, rend_intergenic: 15664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98888, rend_intergenic: 97328  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172961, rend_intergenic: 168037  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 186499 - 200705
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal

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

-building DP trellis

-building trellis in range 186499 - 198120
-exon list size: 1


building trellis

33.3    
66.7    
-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