-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_11349427-11598738

-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_18571-T1
Valid prediction for GlimmerHMM_glimmerT_18556-T1
Valid prediction for GlimmerHMM_glimmerT_18560-T1
Valid prediction for Augustus_model.g12523.t1
Valid prediction for GeneMark_model.31126_t
Valid prediction for GeneMark_model.31128_t
Valid prediction for CodingQuarry_transcript_57486-T1
Valid prediction for GeneMark_model.31116_t
Valid prediction for Augustus_model.g12533.t1
Valid prediction for GeneMark_model.31122_t
Valid prediction for Augustus_model.g12534.t1
Valid prediction for snap_scaffold_7-snap.2192-T1
Valid prediction for Augustus_model.g12521.t1
Valid prediction for snap_scaffold_7-snap.2179-T1
Valid prediction for GlimmerHMM_glimmerT_18563-T1
Valid prediction for GlimmerHMM_glimmerT_18555-T1
Valid prediction for GeneMark_model.31145_t
Valid prediction for snap_scaffold_7-snap.2214-T1
Valid prediction for Augustus_model.g12522.t1
Valid prediction for GlimmerHMM_glimmerT_18561-T1
Valid prediction for Augustus_model.g12520.t1
Valid prediction for GeneMark_model.31129_t
Valid prediction for GeneMark_model.31138_t
Valid prediction for GlimmerHMM_glimmerT_18572-T1
Valid prediction for Augustus_model.g12531.t1
Valid prediction for GlimmerHMM_glimmerT_18569-T1
Valid prediction for GeneMark_model.31127_t
Valid prediction for GlimmerHMM_glimmerT_18574-T1
Valid prediction for GeneMark_model.31125_t
Valid prediction for snap_scaffold_7-snap.2178-T1
Valid prediction for snap_scaffold_7-snap.2181-T1
Valid prediction for snap_scaffold_7-snap.2186-T1
Valid prediction for snap_scaffold_7-snap.2210-T1
Valid prediction for snap_scaffold_7-snap.2203-T1
Valid prediction for GlimmerHMM_glimmerT_18568-T1
Valid prediction for GeneMark_model.31134_t
Valid prediction for GeneMark_model.31142_t
Valid prediction for snap_scaffold_7-snap.2190-T1
Valid prediction for CodingQuarry_transcript_57485-T1
Valid prediction for GlimmerHMM_glimmerT_18553-T1
Valid prediction for Augustus_model.g12536.t1
Valid prediction for GeneMark_model.31137_t
Valid prediction for GeneMark_model.31136_t
Valid prediction for GeneMark_model.31149_t
Valid prediction for snap_scaffold_7-snap.2189-T1
Valid prediction for GeneMark_model.31139_t
Valid prediction for snap_scaffold_7-snap.2200-T1
Valid prediction for snap_scaffold_7-snap.2175-T1
Valid prediction for GlimmerHMM_glimmerT_18567-T1
Valid prediction for GeneMark_model.31144_t
Valid prediction for CodingQuarry_transcript_57487-T1
Valid prediction for Augustus_model.g12532.t1
Valid prediction for GlimmerHMM_glimmerT_18552-T1
Valid prediction for Augustus_model.g12526.t1
Valid prediction for snap_scaffold_7-snap.2193-T1
Valid prediction for HiQ_model.g12524.t1
Valid prediction for Augustus_model.g12530.t1
Valid prediction for snap_scaffold_7-snap.2211-T1
Valid prediction for snap_scaffold_7-snap.2206-T1
Valid prediction for Augustus_model.g12535.t1
Valid prediction for snap_scaffold_7-snap.2208-T1
Valid prediction for GeneMark_model.31119_t
Valid prediction for GeneMark_model.31121_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_7-snap.2174-T1
Valid prediction for snap_scaffold_7-snap.2176-T1
Valid prediction for GlimmerHMM_glimmerT_18570-T1
Valid prediction for snap_scaffold_7-snap.2198-T1
Valid prediction for GlimmerHMM_glimmerT_18566-T1
Valid prediction for GlimmerHMM_glimmerT_18559-T1
Valid prediction for snap_scaffold_7-snap.2194-T1
Valid prediction for Augustus_model.g12519.t1
Valid prediction for GeneMark_model.31132_t
Valid prediction for GeneMark_model.31133_t
Valid prediction for snap_scaffold_7-snap.2195-T1
Valid prediction for Augustus_model.g12527.t1
Valid prediction for snap_scaffold_7-snap.2204-T1
Valid prediction for snap_scaffold_7-snap.2213-T1
Valid prediction for GlimmerHMM_glimmerT_18558-T1
Valid prediction for GeneMark_model.31117_t
Valid prediction for GeneMark_model.31112_t
Valid prediction for GeneMark_model.31143_t
Valid prediction for snap_scaffold_7-snap.2187-T1
Valid prediction for GeneMark_model.31130_t
Valid prediction for GeneMark_model.31148_t
Valid prediction for snap_scaffold_7-snap.2182-T1
Valid prediction for snap_scaffold_7-snap.2207-T1
Valid prediction for snap_scaffold_7-snap.2183-T1
Valid prediction for GeneMark_model.31111_t
Valid prediction for GeneMark_model.31120_t
Valid prediction for snap_scaffold_7-snap.2185-T1
Valid prediction for GlimmerHMM_glimmerT_18554-T1
Valid prediction for snap_scaffold_7-snap.2197-T1
Valid prediction for GeneMark_model.31115_t
Valid prediction for GeneMark_model.31124_t
Valid prediction for Augustus_model.g12529.t1
Valid prediction for snap_scaffold_7-snap.2201-T1
Valid prediction for GeneMark_model.31123_t
Valid prediction for GeneMark_model.31113_t
Valid prediction for GeneMark_model.31135_t
Valid prediction for snap_scaffold_7-snap.2212-T1
Valid prediction for Augustus_model.g12525.t1
Valid prediction for snap_scaffold_7-snap.2205-T1
Valid prediction for GeneMark_model.31114_t
Valid prediction for GlimmerHMM_glimmerT_18565-T1
Valid prediction for Augustus_model.g12528.t1
Valid prediction for GlimmerHMM_glimmerT_18562-T1
Valid prediction for snap_scaffold_7-snap.2196-T1
Valid prediction for snap_scaffold_7-snap.2209-T1
Valid prediction for GeneMark_model.31147_t
Valid prediction for GlimmerHMM_glimmerT_18557-T1
Valid prediction for GeneMark_model.31140_t
Valid prediction for GeneMark_model.31131_t
Valid prediction for GeneMark_model.31141_t
Valid prediction for snap_scaffold_7-snap.2177-T1
Valid prediction for GeneMark_model.31146_t
Valid prediction for GlimmerHMM_glimmerT_18573-T1
Valid prediction for snap_scaffold_7-snap.2180-T1
Valid prediction for GeneMark_model.31118_t
Valid prediction for GlimmerHMM_glimmerT_18564-T1
Valid prediction for snap_scaffold_7-snap.2202-T1
Valid prediction for snap_scaffold_7-snap.2191-T1
Valid prediction for GlimmerHMM_glimmerT_18575-T1
Valid prediction for snap_scaffold_7-snap.2184-T1
Valid prediction for snap_scaffold_7-snap.2199-T1
Valid prediction for snap_scaffold_7-snap.2188-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19504, rend_intergenic: 14364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25329, rend_intergenic: 23405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39138, rend_intergenic: 28071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49067, rend_intergenic: 40400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98864, rend_intergenic: 98703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131239, rend_intergenic: 126322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224895, rend_intergenic: 219018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245248, rend_intergenic: 237702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 246969, rend_intergenic: 246026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 249312
-exon list size: 545


building trellis

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25.8    
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27.6    
27.8    
28.0    
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28.9    
29.1    
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29.6    
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31.1    
31.3    
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31.6    
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32.2    
32.4    
32.5    
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32.9    
33.1    
33.3    
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33.8    
34.0    
34.2    
34.4    
34.6    
34.7    
34.9    
35.1    
35.3    
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35.6    
35.8    
36.0    
36.2    
36.4    
36.6    
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36.9    
37.1    
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38.0    
38.2    
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38.6    
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39.9    
40.0    
40.2    
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40.6    
40.8    
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41.1    
41.3    
41.5    
41.7    
41.9    
42.0    
42.2    
42.4    
42.6    
42.8    
43.0    
43.1    
43.3    
43.5    
43.7    
43.9    
44.1    
44.2    
44.4    
44.6    
44.8    
45.0    
45.2    
45.3    
45.5    
45.7    
45.9    
46.1    
46.3    
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46.6    
46.8    
47.0    
47.2    
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47.5    
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48.1    
48.3    
48.4    
48.6    
48.8    
49.0    
49.2    
49.4    
49.5    
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50.1    
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50.6    
50.8    
51.0    
51.2    
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51.6    
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51.9    
52.1    
52.3    
52.5    
52.7    
52.8    
53.0    
53.2    
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53.6    
53.7    
53.9    
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54.3    
54.5    
54.7    
54.8    
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55.2    
55.4    
55.6    
55.8    
55.9    
56.1    
56.3    
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56.9    
57.0    
57.2    
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57.6    
57.8    
58.0    
58.1    
58.3    
58.5    
58.7    
58.9    
59.0    
59.2    
59.4    
59.6    
59.8    
60.0    
60.1    
60.3    
60.5    
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60.9    
61.1    
61.2    
61.4    
61.6    
61.8    
62.0    
62.2    
62.3    
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62.9    
63.1    
63.3    
63.4    
63.6    
63.8    
64.0    
64.2    
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64.5    
64.7    
64.9    
65.1    
65.3    
65.4    
65.6    
65.8    
66.0    
66.2    
66.4    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.6    
67.8    
68.0    
68.2    
68.4    
68.6    
68.7    
68.9    
69.1    
69.3    
69.5    
69.7    
69.8    
70.0    
70.2    
70.4    
70.6    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
71.8    
72.0    
72.2    
72.4    
72.6    
72.8    
72.9    
73.1    
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73.5    
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73.9    
74.0    
74.2    
74.4    
74.6    
74.8    
75.0    
75.1    
75.3    
75.5    
75.7    
75.9    
76.1    
76.2    
76.4    
76.6    
76.8    
77.0    
77.1    
77.3    
77.5    
77.7    
77.9    
78.1    
78.2    
78.4    
78.6    
78.8    
79.0    
79.2    
79.3    
79.5    
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80.1    
80.3    
80.4    
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    
83.4    
83.5    
83.7    
83.9    
84.1    
84.3    
84.5    
84.6    
84.8    
85.0    
85.2    
85.4    
85.6    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
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88.1    
88.3    
88.5    
88.7    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
89.9    
90.1    
90.3    
90.5    
90.7    
90.9    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.2    
93.4    
93.6    
93.8    
94.0    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.2    
95.4    
95.6    
95.8    
96.0    
96.2    
96.3    
96.5    
96.7    
96.9    
97.1    
97.3    
97.4    
97.6    
97.8    
98.0    
98.2    
98.4    
98.5    
98.7    
98.9    
99.1    
99.3    
99.5    
99.6    
99.8    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 19504, rend_intergenic: 14364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25329, rend_intergenic: 23405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39138, rend_intergenic: 28071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49067, rend_intergenic: 40400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98864, rend_intergenic: 98703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131239, rend_intergenic: 126322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224895, rend_intergenic: 219018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245248, rend_intergenic: 237702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 246969, rend_intergenic: 246026  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 - 11126
-exon list size: 8


building trellis

10.0    
20.0    
30.0    
40.0    
50.0    
60.0    
70.0    
80.0    
90.0    
-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