-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_22/scaffold_22_4028876-4193425

-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 GlimmerHMM_glimmerT_50496-T1
Valid prediction for snap_scaffold_22-snap.772-T1
Valid prediction for GeneMark_model.87403_t
Valid prediction for Augustus_model.g33857.t1
Valid prediction for snap_scaffold_22-snap.771-T1
Valid prediction for GlimmerHMM_glimmerT_50506-T1
Valid prediction for GlimmerHMM_glimmerT_50497-T1
Valid prediction for GlimmerHMM_glimmerT_50509-T1
Couldn't classify 68735, 69452
Couldn't classify 69540, 69748
Sorry, prediction pasa_asmbl_29260.p1 fails validation.
(GAG)	 TT	68735-69452	GT	AGG
(GTT)	 AG	69540-69748	GG	CAG
Valid prediction for GeneMark_model.87398_t
Valid prediction for GeneMark_model.87384_t
Valid prediction for GeneMark_model.87390_t
Valid prediction for GlimmerHMM_glimmerT_50489-T1
Valid prediction for snap_scaffold_22-snap.758-T1
Valid prediction for GeneMark_model.87392_t
Valid prediction for snap_scaffold_22-snap.761-T1
Valid prediction for Augustus_model.g33852.t1
Valid prediction for GeneMark_model.87405_t
Valid prediction for snap_scaffold_22-snap.777-T1
Valid prediction for GeneMark_model.87386_t
Valid prediction for GlimmerHMM_glimmerT_50501-T1
Valid prediction for snap_scaffold_22-snap.789-T1
Valid prediction for GlimmerHMM_glimmerT_50505-T1
Valid prediction for Augustus_model.g33853.t1
Valid prediction for snap_scaffold_22-snap.765-T1
Valid prediction for snap_scaffold_22-snap.757-T1
Valid prediction for GlimmerHMM_glimmerT_50492-T1
Valid prediction for Augustus_model.g33855.t1
Valid prediction for snap_scaffold_22-snap.768-T1
Valid prediction for snap_scaffold_22-snap.763-T1
Valid prediction for GlimmerHMM_glimmerT_50495-T1
Valid prediction for snap_scaffold_22-snap.776-T1
Valid prediction for GlimmerHMM_glimmerT_50511-T1
Valid prediction for Augustus_model.g33850.t1
Valid prediction for snap_scaffold_22-snap.779-T1
Valid prediction for GlimmerHMM_glimmerT_50494-T1
Valid prediction for GeneMark_model.87381_t
Valid prediction for GeneMark_model.87377_t
Valid prediction for GlimmerHMM_glimmerT_50502-T1
Valid prediction for snap_scaffold_22-snap.764-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_50487-T1
Valid prediction for snap_scaffold_22-snap.781-T1
Valid prediction for GeneMark_model.87380_t
Valid prediction for snap_scaffold_22-snap.783-T1
Valid prediction for GlimmerHMM_glimmerT_50508-T1
Valid prediction for GeneMark_model.87379_t
Valid prediction for GeneMark_model.87373_t
Valid prediction for snap_scaffold_22-snap.792-T1
Valid prediction for GlimmerHMM_glimmerT_50499-T1
Valid prediction for snap_scaffold_22-snap.787-T1
Valid prediction for GeneMark_model.87404_t
Valid prediction for snap_scaffold_22-snap.760-T1
Valid prediction for snap_scaffold_22-snap.788-T1
Valid prediction for Augustus_model.g33858.t1
Valid prediction for snap_scaffold_22-snap.780-T1
Valid prediction for GeneMark_model.87402_t
Valid prediction for GeneMark_model.87388_t
Valid prediction for GlimmerHMM_glimmerT_50510-T1
Valid prediction for GeneMark_model.87393_t
Valid prediction for GeneMark_model.87376_t
Valid prediction for GeneMark_model.87383_t
Valid prediction for GlimmerHMM_glimmerT_50484-T1
Valid prediction for GlimmerHMM_glimmerT_50493-T1
Valid prediction for snap_scaffold_22-snap.774-T1
Valid prediction for snap_scaffold_22-snap.793-T1
Valid prediction for GlimmerHMM_glimmerT_50504-T1
Valid prediction for GeneMark_model.87375_t

-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_22-snap.785-T1
Valid prediction for GlimmerHMM_glimmerT_50491-T1
Valid prediction for snap_scaffold_22-snap.766-T1
Valid prediction for snap_scaffold_22-snap.786-T1
Valid prediction for Augustus_model.g33848.t1
Valid prediction for GeneMark_model.87387_t
Valid prediction for GeneMark_model.87400_t
Valid prediction for GlimmerHMM_glimmerT_50500-T1
Valid prediction for GlimmerHMM_glimmerT_50488-T1
Valid prediction for GeneMark_model.87382_t
Valid prediction for GeneMark_model.87407_t
Valid prediction for GeneMark_model.87401_t
Valid prediction for GeneMark_model.87394_t
Valid prediction for snap_scaffold_22-snap.775-T1
Valid prediction for Augustus_model.g33859.t1
Valid prediction for snap_scaffold_22-snap.767-T1
Valid prediction for snap_scaffold_22-snap.790-T1
Valid prediction for Augustus_model.g33854.t1
Valid prediction for GeneMark_model.87409_t
Valid prediction for snap_scaffold_22-snap.791-T1
Valid prediction for snap_scaffold_22-snap.794-T1
Valid prediction for GlimmerHMM_glimmerT_50486-T1
Valid prediction for snap_scaffold_22-snap.762-T1
Valid prediction for snap_scaffold_22-snap.784-T1
Valid prediction for GlimmerHMM_glimmerT_50490-T1
Valid prediction for snap_scaffold_22-snap.773-T1
Valid prediction for GeneMark_model.87391_t
Valid prediction for snap_scaffold_22-snap.770-T1
Valid prediction for snap_scaffold_22-snap.759-T1
Valid prediction for GlimmerHMM_glimmerT_50485-T1
Valid prediction for GlimmerHMM_glimmerT_50507-T1
Valid prediction for GeneMark_model.87385_t
Valid prediction for Augustus_model.g33856.t1
Valid prediction for Augustus_model.g33851.t1
Valid prediction for GeneMark_model.87374_t
Valid prediction for snap_scaffold_22-snap.778-T1
Valid prediction for GlimmerHMM_glimmerT_50498-T1
Valid prediction for GeneMark_model.87406_t
Valid prediction for GlimmerHMM_glimmerT_50512-T1
Valid prediction for snap_scaffold_22-snap.769-T1
Valid prediction for Augustus_model.g33849.t1
Valid prediction for snap_scaffold_22-snap.782-T1
Valid prediction for GeneMark_model.87397_t
Valid prediction for GeneMark_model.87389_t
Valid prediction for GeneMark_model.87378_t
Valid prediction for GeneMark_model.87396_t
Valid prediction for GeneMark_model.87408_t
Valid prediction for GlimmerHMM_glimmerT_50503-T1
Sorry, intron length (4) is less than minimum required (10)

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16559, rend_intergenic: 10191  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21980, rend_intergenic: 17003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38851, rend_intergenic: 22962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50103, rend_intergenic: 50031  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55906, rend_intergenic: 51250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61098, rend_intergenic: 57957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70634, rend_intergenic: 63403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87795, rend_intergenic: 86607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104011, rend_intergenic: 98693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108464, rend_intergenic: 104801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115589, rend_intergenic: 111936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147062, rend_intergenic: 143167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 84658, rend_intergenic: 84655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164550
-exon list size: 556


building trellis

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24.9    
25.1    
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27.8    
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28.9    
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30.1    
30.3    
30.5    
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31.9    
32.1    
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32.6    
32.8    
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33.5    
33.7    
33.9    
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34.8    
34.9    
35.1    
35.3    
35.5    
35.7    
35.8    
36.0    
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37.5    
37.6    
37.8    
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38.9    
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40.5    
40.7    
40.9    
41.0    
41.2    
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42.7    
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43.0    
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44.6    
44.8    
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48.0    
48.2    
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49.8    
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51.1    
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53.2    
53.4    
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54.7    
54.8    
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55.2    
55.4    
55.6    
55.7    
55.9    
56.1    
56.3    
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56.6    
56.8    
57.0    
57.2    
57.3    
57.5    
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57.9    
58.1    
58.2    
58.4    
58.6    
58.8    
59.0    
59.1    
59.3    
59.5    
59.7    
59.9    
60.0    
60.2    
60.4    
60.6    
60.8    
60.9    
61.1    
61.3    
61.5    
61.6    
61.8    
62.0    
62.2    
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63.1    
63.3    
63.4    
63.6    
63.8    
64.0    
64.2    
64.3    
64.5    
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64.9    
65.1    
65.2    
65.4    
65.6    
65.8    
65.9    
66.1    
66.3    
66.5    
66.7    
66.8    
67.0    
67.2    
67.4    
67.6    
67.7    
67.9    
68.1    
68.3    
68.5    
68.6    
68.8    
69.0    
69.2    
69.4    
69.5    
69.7    
69.9    
70.1    
70.3    
70.4    
70.6    
70.8    
71.0    
71.1    
71.3    
71.5    
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71.9    
72.0    
72.2    
72.4    
72.6    
72.8    
72.9    
73.1    
73.3    
73.5    
73.7    
73.8    
74.0    
74.2    
74.4    
74.6    
74.7    
74.9    
75.1    
75.3    
75.4    
75.6    
75.8    
76.0    
76.2    
76.3    
76.5    
76.7    
76.9    
77.1    
77.2    
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77.6    
77.8    
78.0    
78.1    
78.3    
78.5    
78.7    
78.9    
79.0    
79.2    
79.4    
79.6    
79.7    
79.9    
80.1    
80.3    
80.5    
80.6    
80.8    
81.0    
81.2    
81.4    
81.5    
81.7    
81.9    
82.1    
82.3    
82.4    
82.6    
82.8    
83.0    
83.2    
83.3    
83.5    
83.7    
83.9    
84.1    
84.2    
84.4    
84.6    
84.8    
84.9    
85.1    
85.3    
85.5    
85.7    
85.8    
86.0    
86.2    
86.4    
86.6    
86.7    
86.9    
87.1    
87.3    
87.5    
87.6    
87.8    
88.0    
88.2    
88.4    
88.5    
88.7    
88.9    
89.1    
89.2    
89.4    
89.6    
89.8    
90.0    
90.1    
90.3    
90.5    
90.7    
90.9    
91.0    
91.2    
91.4    
91.6    
91.8    
91.9    
92.1    
92.3    
92.5    
92.7    
92.8    
93.0    
93.2    
93.4    
93.5    
93.7    
93.9    
94.1    
94.3    
94.4    
94.6    
94.8    
95.0    
95.2    
95.3    
95.5    
95.7    
95.9    
96.1    
96.2    
96.4    
96.6    
96.8    
97.0    
97.1    
97.3    
97.5    
97.7    
97.8    
98.0    
98.2    
98.4    
98.6    
98.7    
98.9    
99.1    
99.3    
99.5    
99.6    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 16559, rend_intergenic: 10191  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21980, rend_intergenic: 17003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38851, rend_intergenic: 22962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50103, rend_intergenic: 50031  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55906, rend_intergenic: 51250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61098, rend_intergenic: 57957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70634, rend_intergenic: 63403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87795, rend_intergenic: 86607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104011, rend_intergenic: 98693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108464, rend_intergenic: 104801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115589, rend_intergenic: 111936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147062, rend_intergenic: 143167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 84658, rend_intergenic: 84655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support