-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_9526059-9750426

-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_8-snap.1888-T1
Valid prediction for CodingQuarry_transcript_59747-T1
Valid prediction for GlimmerHMM_glimmerT_20324-T1
Couldn't classify 61036, 61175
Sorry, prediction pasa_asmbl_53088.p1 fails validation.
(ATG)	 GG	60397-60525	GT	AGG
(GTG)	 AG	60844-60940	GT	GGG
(TGG)	 AG	61036-61175	CC	GAC
-recovered pasa_asmbl_53088.p1, initial, 60397, 60525
-recovered pasa_asmbl_53088.p1, internal, 60844, 60940
Valid prediction for GlimmerHMM_glimmerT_20318-T1
Valid prediction for snap_scaffold_8-snap.1898-T1
Valid prediction for Augustus_model.g13519.t1
Couldn't classify 177536, 177660
Sorry, prediction pasa_asmbl_53579.p1 fails validation.
(ATG)	 CG	176168-176335	GT	AGG
(GTG)	 AG	176803-176941	GT	AGG
(AGG)	 AG	177132-177275	GT	TGG
(GCT)	 AG	177536-177660	GT	CTG
-recovered pasa_asmbl_53579.p1, initial, 176168, 176335
-recovered pasa_asmbl_53579.p1, internal, 176803, 176941
-recovered pasa_asmbl_53579.p1, internal, 177132, 177275
-recovered pasa_asmbl_53579.p1, internal, 177536, 177660
Valid prediction for snap_scaffold_8-snap.1871-T1
Valid prediction for CodingQuarry_transcript_59751-T1
Valid prediction for GlimmerHMM_glimmerT_20323-T1
Valid prediction for GlimmerHMM_glimmerT_20319-T1
Valid prediction for GlimmerHMM_glimmerT_20346-T1
Valid prediction for CodingQuarry_transcript_59748-T1
Valid prediction for GlimmerHMM_glimmerT_20339-T1
Valid prediction for snap_scaffold_8-snap.1859-T1
Valid prediction for snap_scaffold_8-snap.1868-T1
Valid prediction for Augustus_model.g13525.t1
Valid prediction for snap_scaffold_8-snap.1903-T1
Valid prediction for snap_scaffold_8-snap.1902-T1
Valid prediction for GlimmerHMM_glimmerT_20343-T1
Valid prediction for HiQ_model.g13526.t1
Valid prediction for GlimmerHMM_glimmerT_20317-T1
Valid prediction for snap_scaffold_8-snap.1891-T1
Valid prediction for HiQ_model.g13530.t1
Valid prediction for CodingQuarry_transcript_59750-T1
Valid prediction for pasa_asmbl_53083.p1
Valid prediction for Augustus_model.g13523.t1
Valid prediction for GlimmerHMM_glimmerT_20325-T1
Valid prediction for GlimmerHMM_glimmerT_20335-T1
Valid prediction for GlimmerHMM_glimmerT_20342-T1
Valid prediction for pasa_asmbl_53104.p1
Valid prediction for GlimmerHMM_glimmerT_20329-T1
Valid prediction for Augustus_model.g13518.t1
Valid prediction for snap_scaffold_8-snap.1866-T1
Valid prediction for snap_scaffold_8-snap.1897-T1
Valid prediction for Augustus_model.g13520.t1
Valid prediction for pasa_asmbl_53099.p1
Valid prediction for GlimmerHMM_glimmerT_20338-T1
Valid prediction for GlimmerHMM_glimmerT_20321-T1
Valid prediction for GlimmerHMM_glimmerT_20312-T1
Valid prediction for Augustus_model.g13514.t1
Valid prediction for snap_scaffold_8-snap.1867-T1
Valid prediction for GlimmerHMM_glimmerT_20347-T1
Valid prediction for CodingQuarry_transcript_59753-T1
Valid prediction for HiQ_model.g13509.t1
Valid prediction for GlimmerHMM_glimmerT_20322-T1
Valid prediction for Augustus_model.g13516.t1
Valid prediction for snap_scaffold_8-snap.1861-T1
Valid prediction for snap_scaffold_8-snap.1885-T1
Valid prediction for snap_scaffold_8-snap.1860-T1
Valid prediction for HiQ_model.g13510.t1
Valid prediction for GlimmerHMM_glimmerT_20331-T1
Valid prediction for snap_scaffold_8-snap.1881-T1
Valid prediction for snap_scaffold_8-snap.1878-T1
Valid prediction for pasa_asmbl_53082.p1
Valid prediction for Augustus_model.g13517.t1
Valid prediction for Augustus_model.g13524.t1
Valid prediction for snap_scaffold_8-snap.1876-T1
Valid prediction for GlimmerHMM_glimmerT_20333-T1
Valid prediction for snap_scaffold_8-snap.1873-T1
Valid prediction for snap_scaffold_8-snap.1864-T1
Valid prediction for pasa_asmbl_53620.p1
Valid prediction for GlimmerHMM_glimmerT_20332-T1
Valid prediction for snap_scaffold_8-snap.1900-T1
Valid prediction for snap_scaffold_8-snap.1875-T1
Valid prediction for HiQ_model.g13527.t1
Valid prediction for GlimmerHMM_glimmerT_20345-T1
Valid prediction for Augustus_model.g13529.t1
Valid prediction for pasa_asmbl_53097.p1
Valid prediction for GlimmerHMM_glimmerT_20328-T1
Valid prediction for snap_scaffold_8-snap.1889-T1
Valid prediction for GlimmerHMM_glimmerT_20334-T1
Valid prediction for snap_scaffold_8-snap.1893-T1
Valid prediction for Augustus_model.g13528.t1
Valid prediction for CodingQuarry_transcript_59749-T1
Valid prediction for GlimmerHMM_glimmerT_20337-T1
Valid prediction for GlimmerHMM_glimmerT_20341-T1
Valid prediction for snap_scaffold_8-snap.1894-T1
Valid prediction for snap_scaffold_8-snap.1872-T1
Valid prediction for GlimmerHMM_glimmerT_20313-T1
Valid prediction for CodingQuarry_transcript_59752-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_20326-T1
Valid prediction for snap_scaffold_8-snap.1883-T1
Valid prediction for snap_scaffold_8-snap.1896-T1
Valid prediction for snap_scaffold_8-snap.1862-T1
Valid prediction for snap_scaffold_8-snap.1895-T1
Valid prediction for snap_scaffold_8-snap.1869-T1
Valid prediction for pasa_asmbl_52055.p1
Valid prediction for snap_scaffold_8-snap.1901-T1
Valid prediction for snap_scaffold_8-snap.1884-T1
Valid prediction for GlimmerHMM_glimmerT_20327-T1
Valid prediction for GlimmerHMM_glimmerT_20315-T1
Valid prediction for CodingQuarry_transcript_59754-T1
Valid prediction for GlimmerHMM_glimmerT_20336-T1
Valid prediction for snap_scaffold_8-snap.1874-T1
Valid prediction for GlimmerHMM_glimmerT_20330-T1
Valid prediction for HiQ_model.g13511.t1
Valid prediction for HiQ_model.g13531.t1
Valid prediction for Augustus_model.g13532.t1
Valid prediction for Augustus_model.g13513.t1
Valid prediction for GlimmerHMM_glimmerT_20314-T1
Valid prediction for HiQ_model.g13515.t1
Valid prediction for snap_scaffold_8-snap.1892-T1
Valid prediction for GlimmerHMM_glimmerT_20320-T1
Valid prediction for GlimmerHMM_glimmerT_20344-T1
Valid prediction for snap_scaffold_8-snap.1877-T1
Valid prediction for Augustus_model.g13512.t1
Valid prediction for snap_scaffold_8-snap.1890-T1
Valid prediction for GlimmerHMM_glimmerT_20340-T1
Valid prediction for Augustus_model.g13522.t1
Valid prediction for pasa_asmbl_52052.p1
Valid prediction for snap_scaffold_8-snap.1887-T1
Valid prediction for CodingQuarry_transcript_59746-T1
Valid prediction for snap_scaffold_8-snap.1882-T1
Valid prediction for Augustus_model.g13521.t1
Valid prediction for snap_scaffold_8-snap.1880-T1
Valid prediction for snap_scaffold_8-snap.1879-T1
Valid prediction for snap_scaffold_8-snap.1899-T1
Valid prediction for snap_scaffold_8-snap.1870-T1
Valid prediction for pasa_asmbl_52053.p2
Valid prediction for snap_scaffold_8-snap.1863-T1
Valid prediction for GlimmerHMM_glimmerT_20316-T1
Valid prediction for snap_scaffold_8-snap.1886-T1
Valid prediction for snap_scaffold_8-snap.1865-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15418, rend_intergenic: 10186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26588, rend_intergenic: 24069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39104, rend_intergenic: 30177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50525, rend_intergenic: 39111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75388, rend_intergenic: 68595  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80074, rend_intergenic: 75502  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85355, rend_intergenic: 81625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93162, rend_intergenic: 86181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101443, rend_intergenic: 95852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111744, rend_intergenic: 107297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124582, rend_intergenic: 112992  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126146, rend_intergenic: 124905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132047, rend_intergenic: 129358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156216, rend_intergenic: 134707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164507, rend_intergenic: 156665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172037, rend_intergenic: 166646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192591, rend_intergenic: 186177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206187, rend_intergenic: 204174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208417, rend_intergenic: 206209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223678, rend_intergenic: 210070  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 224368
-exon list size: 531


building trellis

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3.9    
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8.1    
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18.6    
18.8    
18.9    
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19.7    
19.9    
20.1    
20.3    
20.5    
20.6    
20.8    
21.0    
21.2    
21.4    
21.6    
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22.1    
22.3    
22.5    
22.7    
22.9    
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24.0    
24.2    
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24.6    
24.8    
25.0    
25.1    
25.3    
25.5    
25.7    
25.9    
26.1    
26.3    
26.5    
26.6    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
28.0    
28.1    
28.3    
28.5    
28.7    
28.9    
29.1    
29.3    
29.5    
29.6    
29.8    
30.0    
30.2    
30.4    
30.6    
30.8    
31.0    
31.1    
31.3    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.6    
32.8    
33.0    
33.2    
33.4    
33.6    
33.8    
34.0    
34.1    
34.3    
34.5    
34.7    
34.9    
35.1    
35.3    
35.5    
35.6    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
37.0    
37.1    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.5    
38.6    
38.8    
39.0    
39.2    
39.4    
39.6    
39.8    
40.0    
40.2    
40.3    
40.5    
40.7    
40.9    
41.1    
41.3    
41.5    
41.7    
41.8    
42.0    
42.2    
42.4    
42.6    
42.8    
43.0    
43.2    
43.3    
43.5    
43.7    
43.9    
44.1    
44.3    
44.5    
44.7    
44.8    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.2    
46.3    
46.5    
46.7    
46.9    
47.1    
47.3    
47.5    
47.7    
47.8    
48.0    
48.2    
48.4    
48.6    
48.8    
49.0    
49.2    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
50.8    
51.0    
51.2    
51.4    
51.6    
51.8    
52.0    
52.2    
52.3    
52.5    
52.7    
52.9    
53.1    
53.3    
53.5    
53.7    
53.8    
54.0    
54.2    
54.4    
54.6    
54.8    
55.0    
55.2    
55.3    
55.5    
55.7    
55.9    
56.1    
56.3    
56.5    
56.7    
56.8    
57.0    
57.2    
57.4    
57.6    
57.8    
58.0    
58.2    
58.3    
58.5    
58.7    
58.9    
59.1    
59.3    
59.5    
59.7    
59.8    
60.0    
60.2    
60.4    
60.6    
60.8    
61.0    
61.2    
61.4    
61.5    
61.7    
61.9    
62.1    
62.3    
62.5    
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62.9    
63.0    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.4    
64.5    
64.7    
64.9    
65.1    
65.3    
65.5    
65.7    
65.9    
66.0    
66.2    
66.4    
66.6    
66.8    
67.0    
67.2    
67.4    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.7    
68.9    
69.0    
69.2    
69.4    
69.6    
69.8    
70.0    
70.2    
70.4    
70.5    
70.7    
70.9    
71.1    
71.3    
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71.7    
71.9    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.4    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.5    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.0    
78.2    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.5    
79.7    
79.9    
80.1    
80.3    
80.5    
80.7    
80.9    
81.1    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.6    
82.7    
82.9    
83.1    
83.3    
83.5    
83.7    
83.9    
84.1    
84.2    
84.4    
84.6    
84.8    
85.0    
85.2    
85.4    
85.6    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
86.9    
87.1    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.6    
88.7    
88.9    
89.1    
89.3    
89.5    
89.7    
89.9    
90.1    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.7    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.2    
93.4    
93.6    
93.8    
94.0    
94.2    
94.4    
94.6    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.2    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.6    
97.7    
97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.1    
99.2    
99.4    
99.6    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 15418, rend_intergenic: 10186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26588, rend_intergenic: 24069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39104, rend_intergenic: 30177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50525, rend_intergenic: 39111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75388, rend_intergenic: 68595  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80074, rend_intergenic: 75502  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85355, rend_intergenic: 81625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93162, rend_intergenic: 86181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101443, rend_intergenic: 95852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111744, rend_intergenic: 107297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124582, rend_intergenic: 112992  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126146, rend_intergenic: 124905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132047, rend_intergenic: 129358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156216, rend_intergenic: 134707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164507, rend_intergenic: 156665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172037, rend_intergenic: 166646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192591, rend_intergenic: 186177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206187, rend_intergenic: 204174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208417, rend_intergenic: 206209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223678, rend_intergenic: 210070  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