-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_9774021-9982269

-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_25261-T1
Valid prediction for snap_scaffold_10-snap.1918-T1
Valid prediction for snap_scaffold_10-snap.1896-T1
Valid prediction for snap_scaffold_10-snap.1938-T1
Valid prediction for snap_scaffold_10-snap.1935-T1
Valid prediction for Augustus_model.g16812.t1
Valid prediction for GlimmerHMM_glimmerT_25254-T1
Valid prediction for pasa_asmbl_3408.p1
Valid prediction for snap_scaffold_10-snap.1916-T1
Valid prediction for GlimmerHMM_glimmerT_25273-T1
Valid prediction for snap_scaffold_10-snap.1931-T1
Valid prediction for snap_scaffold_10-snap.1914-T1
Valid prediction for snap_scaffold_10-snap.1924-T1
Valid prediction for GlimmerHMM_glimmerT_25268-T1
Valid prediction for GlimmerHMM_glimmerT_25270-T1
Valid prediction for snap_scaffold_10-snap.1908-T1
Valid prediction for CodingQuarry_transcript_5542-T1
Valid prediction for snap_scaffold_10-snap.1925-T1
Valid prediction for snap_scaffold_10-snap.1901-T1
Valid prediction for Augustus_model.g16819.t1
Valid prediction for snap_scaffold_10-snap.1911-T1
Couldn't classify 22168, 22263
Couldn't classify 22912, 23442
Sorry, prediction pasa_asmbl_3809.p1 fails validation.
(AGT)	 CC	22168-22263	GT	GGG
(GTA)	 AG	22912-23442	CT	TCC
Valid prediction for GlimmerHMM_glimmerT_25265-T1
Valid prediction for snap_scaffold_10-snap.1898-T1
Valid prediction for snap_scaffold_10-snap.1933-T1
Valid prediction for snap_scaffold_10-snap.1903-T1
Valid prediction for GlimmerHMM_glimmerT_25272-T1
Valid prediction for Augustus_model.g16820.t1
Valid prediction for GlimmerHMM_glimmerT_25266-T1
Valid prediction for snap_scaffold_10-snap.1902-T1
Valid prediction for GlimmerHMM_glimmerT_25262-T1
Valid prediction for snap_scaffold_10-snap.1912-T1
Valid prediction for snap_scaffold_10-snap.1929-T1
Valid prediction for snap_scaffold_10-snap.1904-T1
Valid prediction for snap_scaffold_10-snap.1926-T1
Valid prediction for GlimmerHMM_glimmerT_25253-T1
Valid prediction for GlimmerHMM_glimmerT_25264-T1
Valid prediction for snap_scaffold_10-snap.1906-T1
Valid prediction for HiQ_model.g16816.t1
Valid prediction for snap_scaffold_10-snap.1936-T1
Valid prediction for snap_scaffold_10-snap.1921-T1
Valid prediction for snap_scaffold_10-snap.1913-T1
Valid prediction for snap_scaffold_10-snap.1897-T1
Valid prediction for snap_scaffold_10-snap.1927-T1
Valid prediction for Augustus_model.g16813.t1
Valid prediction for GlimmerHMM_glimmerT_25252-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_25271-T1
Valid prediction for snap_scaffold_10-snap.1919-T1
Valid prediction for GlimmerHMM_glimmerT_25267-T1
Valid prediction for GlimmerHMM_glimmerT_25263-T1
Valid prediction for snap_scaffold_10-snap.1928-T1
Valid prediction for Augustus_model.g16817.t1
Valid prediction for snap_scaffold_10-snap.1922-T1
Valid prediction for snap_scaffold_10-snap.1894-T1
Valid prediction for snap_scaffold_10-snap.1909-T1
Valid prediction for GlimmerHMM_glimmerT_25257-T1
Valid prediction for snap_scaffold_10-snap.1915-T1
Valid prediction for snap_scaffold_10-snap.1934-T1
Valid prediction for snap_scaffold_10-snap.1917-T1
Valid prediction for snap_scaffold_10-snap.1937-T1
Valid prediction for GlimmerHMM_glimmerT_25258-T1
Valid prediction for GlimmerHMM_glimmerT_25256-T1
Valid prediction for GlimmerHMM_glimmerT_25260-T1
Valid prediction for Augustus_model.g16814.t1
Valid prediction for snap_scaffold_10-snap.1905-T1
Valid prediction for snap_scaffold_10-snap.1923-T1
Valid prediction for snap_scaffold_10-snap.1910-T1
Couldn't classify 135328, 135492
Couldn't classify 136438, 136503
Sorry, prediction pasa_asmbl_4706.p1 fails validation.
(TCC)	 CC	135328-135492	GT	AGG
(GCC)	 AG	135648-135746	GC	AGG
(GTG)	 AG	136259-136330	GT	TGG
(GAG)	 AG	136438-136503	CT	AGC
-recovered pasa_asmbl_4706.p1, internal, 135648, 135746
-recovered pasa_asmbl_4706.p1, internal, 136259, 136330
Valid prediction for GlimmerHMM_glimmerT_25259-T1
Valid prediction for Augustus_model.g16811.t1
Valid prediction for snap_scaffold_10-snap.1930-T1
Valid prediction for snap_scaffold_10-snap.1907-T1
Valid prediction for Augustus_model.g16818.t1
Valid prediction for snap_scaffold_10-snap.1895-T1
Valid prediction for snap_scaffold_10-snap.1920-T1
Valid prediction for GlimmerHMM_glimmerT_25251-T1
Valid prediction for GlimmerHMM_glimmerT_25269-T1
Valid prediction for GlimmerHMM_glimmerT_25255-T1
Valid prediction for snap_scaffold_10-snap.1900-T1
Valid prediction for pasa_asmbl_4705.p1
Valid prediction for snap_scaffold_10-snap.1932-T1
Valid prediction for Augustus_model.g16815.t1
Valid prediction for snap_scaffold_10-snap.1899-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9850, rend_intergenic: 5029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42342, rend_intergenic: 29232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46724, rend_intergenic: 42491  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56502, rend_intergenic: 47376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61666, rend_intergenic: 56881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69041, rend_intergenic: 61898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90149, rend_intergenic: 87957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101496, rend_intergenic: 95125  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111210, rend_intergenic: 105285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115142, rend_intergenic: 112478  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127483, rend_intergenic: 115505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157798, rend_intergenic: 153111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162914, rend_intergenic: 161856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167713, rend_intergenic: 163940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172245, rend_intergenic: 168200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206480, rend_intergenic: 203357  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 208249
-exon list size: 396


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
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2.3    
2.5    
2.8    
3.0    
3.3    
3.5    
3.8    
4.0    
4.3    
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5.3    
5.5    
5.8    
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6.3    
6.5    
6.8    
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7.3    
7.5    
7.8    
8.0    
8.3    
8.5    
8.8    
9.0    
9.3    
9.5    
9.8    
10.1    
10.3    
10.6    
10.8    
11.1    
11.3    
11.6    
11.8    
12.1    
12.3    
12.6    
12.8    
13.1    
13.3    
13.6    
13.8    
14.1    
14.3    
14.6    
14.8    
15.1    
15.3    
15.6    
15.8    
16.1    
16.3    
16.6    
16.8    
17.1    
17.3    
17.6    
17.8    
18.1    
18.3    
18.6    
18.8    
19.1    
19.3    
19.6    
19.8    
20.1    
20.4    
20.6    
20.9    
21.1    
21.4    
21.6    
21.9    
22.1    
22.4    
22.6    
22.9    
23.1    
23.4    
23.6    
23.9    
24.1    
24.4    
24.6    
24.9    
25.1    
25.4    
25.6    
25.9    
26.1    
26.4    
26.6    
26.9    
27.1    
27.4    
27.6    
27.9    
28.1    
28.4    
28.6    
28.9    
29.1    
29.4    
29.6    
29.9    
30.2    
30.4    
30.7    
30.9    
31.2    
31.4    
31.7    
31.9    
32.2    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
34.9    
35.2    
35.4    
35.7    
35.9    
36.2    
36.4    
36.7    
36.9    
37.2    
37.4    
37.7    
37.9    
38.2    
38.4    
38.7    
38.9    
39.2    
39.4    
39.7    
39.9    
40.2    
40.5    
40.7    
41.0    
41.2    
41.5    
41.7    
42.0    
42.2    
42.5    
42.7    
43.0    
43.2    
43.5    
43.7    
44.0    
44.2    
44.5    
44.7    
45.0    
45.2    
45.5    
45.7    
46.0    
46.2    
46.5    
46.7    
47.0    
47.2    
47.5    
47.7    
48.0    
48.2    
48.5    
48.7    
49.0    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.0    
51.3    
51.5    
51.8    
52.0    
52.3    
52.5    
52.8    
53.0    
53.3    
53.5    
53.8    
54.0    
54.3    
54.5    
54.8    
55.0    
55.3    
55.5    
55.8    
56.0    
56.3    
56.5    
56.8    
57.0    
57.3    
57.5    
57.8    
58.0    
58.3    
58.5    
58.8    
59.0    
59.3    
59.5    
59.8    
60.1    
60.3    
60.6    
60.8    
61.1    
61.3    
61.6    
61.8    
62.1    
62.3    
62.6    
62.8    
63.1    
63.3    
63.6    
63.8    
64.1    
64.3    
64.6    
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65.1    
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65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.3    
67.6    
67.8    
68.1    
68.3    
68.6    
68.8    
69.1    
69.3    
69.6    
69.8    
70.1    
70.4    
70.6    
70.9    
71.1    
71.4    
71.6    
71.9    
72.1    
72.4    
72.6    
72.9    
73.1    
73.4    
73.6    
73.9    
74.1    
74.4    
74.6    
74.9    
75.1    
75.4    
75.6    
75.9    
76.1    
76.4    
76.6    
76.9    
77.1    
77.4    
77.6    
77.9    
78.1    
78.4    
78.6    
78.9    
79.1    
79.4    
79.6    
79.9    
80.2    
80.4    
80.7    
80.9    
81.2    
81.4    
81.7    
81.9    
82.2    
82.4    
82.7    
82.9    
83.2    
83.4    
83.7    
83.9    
84.2    
84.4    
84.7    
84.9    
85.2    
85.4    
85.7    
85.9    
86.2    
86.4    
86.7    
86.9    
87.2    
87.4    
87.7    
87.9    
88.2    
88.4    
88.7    
88.9    
89.2    
89.4    
89.7    
89.9    
90.2    
90.5    
90.7    
91.0    
91.2    
91.5    
91.7    
92.0    
92.2    
92.5    
92.7    
93.0    
93.2    
93.5    
93.7    
94.0    
94.2    
94.5    
94.7    
95.0    
95.2    
95.5    
95.7    
96.0    
96.2    
96.5    
96.7    
97.0    
97.2    
97.5    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 9850, rend_intergenic: 5029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42342, rend_intergenic: 29232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46724, rend_intergenic: 42491  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56502, rend_intergenic: 47376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61666, rend_intergenic: 56881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69041, rend_intergenic: 61898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90149, rend_intergenic: 87957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101496, rend_intergenic: 95125  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111210, rend_intergenic: 105285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115142, rend_intergenic: 112478  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127483, rend_intergenic: 115505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157798, rend_intergenic: 153111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162914, rend_intergenic: 161856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167713, rend_intergenic: 163940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172245, rend_intergenic: 168200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206480, rend_intergenic: 203357  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support