-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_4/scaffold_4_9050064-9165364

-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_4-snap.1903-T1
Valid prediction for snap_scaffold_4-snap.1906-T1
Valid prediction for GeneMark_model.16368_t
Valid prediction for GlimmerHMM_glimmerT_10073-T1
Valid prediction for GeneMark_model.16356_t
Valid prediction for GeneMark_model.16354_t
Valid prediction for GeneMark_model.16363_t
Valid prediction for snap_scaffold_4-snap.1905-T1
Valid prediction for GeneMark_model.16340_t
Valid prediction for GeneMark_model.16357_t
Valid prediction for snap_scaffold_4-snap.1919-T1
Valid prediction for snap_scaffold_4-snap.1909-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g6610.t1
Valid prediction for GlimmerHMM_glimmerT_10062-T1
Valid prediction for snap_scaffold_4-snap.1897-T1
Valid prediction for snap_scaffold_4-snap.1916-T1
Valid prediction for GeneMark_model.16361_t
Valid prediction for GeneMark_model.16351_t
Valid prediction for GlimmerHMM_glimmerT_10072-T1
Valid prediction for GlimmerHMM_glimmerT_10063-T1
Valid prediction for Augustus_model.g6607.t1
Valid prediction for GlimmerHMM_glimmerT_10070-T1
Valid prediction for Augustus_model.g6606.t1
Valid prediction for GlimmerHMM_glimmerT_10074-T1
Valid prediction for Augustus_model.g6609.t1
Valid prediction for snap_scaffold_4-snap.1918-T1
Valid prediction for GeneMark_model.16358_t
Valid prediction for GeneMark_model.16364_t
Valid prediction for GeneMark_model.16353_t
Valid prediction for GeneMark_model.16341_t
Valid prediction for snap_scaffold_4-snap.1912-T1
Valid prediction for GeneMark_model.16346_t
Valid prediction for GeneMark_model.16370_t
Valid prediction for GeneMark_model.16348_t
Valid prediction for snap_scaffold_4-snap.1896-T1
Valid prediction for GeneMark_model.16350_t
Valid prediction for GeneMark_model.16343_t
Valid prediction for snap_scaffold_4-snap.1902-T1
Valid prediction for snap_scaffold_4-snap.1908-T1
Valid prediction for GeneMark_model.16366_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_4-snap.1899-T1
Valid prediction for GlimmerHMM_glimmerT_10079-T1
Valid prediction for Augustus_model.g6605.t1
Valid prediction for snap_scaffold_4-snap.1901-T1
Valid prediction for snap_scaffold_4-snap.1915-T1
Valid prediction for GeneMark_model.16352_t
Valid prediction for GeneMark_model.16339_t
Valid prediction for GlimmerHMM_glimmerT_10075-T1
Valid prediction for snap_scaffold_4-snap.1900-T1
Valid prediction for snap_scaffold_4-snap.1913-T1
Valid prediction for GeneMark_model.16359_t
Valid prediction for snap_scaffold_4-snap.1898-T1
Valid prediction for GeneMark_model.16345_t
Valid prediction for GlimmerHMM_glimmerT_10071-T1
Valid prediction for GeneMark_model.16365_t
Valid prediction for GlimmerHMM_glimmerT_10068-T1
Valid prediction for GlimmerHMM_glimmerT_10078-T1
Valid prediction for GlimmerHMM_glimmerT_10064-T1
Valid prediction for snap_scaffold_4-snap.1904-T1
Valid prediction for snap_scaffold_4-snap.1907-T1
Valid prediction for GeneMark_model.16349_t
Valid prediction for GeneMark_model.16362_t
Valid prediction for Augustus_model.g6608.t1
Valid prediction for snap_scaffold_4-snap.1920-T1
Valid prediction for snap_scaffold_4-snap.1911-T1
Valid prediction for snap_scaffold_4-snap.1910-T1
Valid prediction for GeneMark_model.16371_t
Valid prediction for GeneMark_model.16347_t
Valid prediction for GlimmerHMM_glimmerT_10077-T1
Valid prediction for GlimmerHMM_glimmerT_10067-T1
Valid prediction for Augustus_model.g6604.t1
Valid prediction for snap_scaffold_4-snap.1917-T1
Valid prediction for snap_scaffold_4-snap.1914-T1
Valid prediction for GeneMark_model.16360_t
Valid prediction for GeneMark_model.16355_t
Valid prediction for GeneMark_model.16344_t
Valid prediction for GeneMark_model.16367_t
Valid prediction for GeneMark_model.16342_t
Valid prediction for GlimmerHMM_glimmerT_10065-T1
Valid prediction for GlimmerHMM_glimmerT_10069-T1
Valid prediction for GeneMark_model.16369_t
Couldn't classify 95626, 95712
Sorry, prediction GlimmerHMM_glimmerT_10066-T1 fails validation.
(ATG)	 CA	94682-94954	GT	CTG
(GTC)	 AG	95626-95712	NN	ANN
-recovered GlimmerHMM_glimmerT_10066-T1, initial, 94682, 94954
Valid prediction for GlimmerHMM_glimmerT_10076-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 37123, rend_intergenic: 35287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58153, rend_intergenic: 55619  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68021, rend_intergenic: 64977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88095, rend_intergenic: 68304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95406, rend_intergenic: 93380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 115301
-exon list size: 352


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
2.0    
2.3    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.2    
4.5    
4.8    
5.1    
5.4    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.7    
11.0    
11.3    
11.6    
11.9    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.5    
15.8    
16.1    
16.4    
16.7    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.0    
22.3    
22.6    
22.9    
23.2    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.8    
27.1    
27.4    
27.7    
28.0    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.6    
31.9    
32.2    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.2    
34.5    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.1    
38.4    
38.7    
39.0    
39.3    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.6    
44.9    
45.2    
45.5    
45.8    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.4    
49.7    
50.0    
50.3    
50.6    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.2    
54.5    
54.8    
55.1    
55.4    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.7    
61.0    
61.3    
61.6    
61.9    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.5    
65.8    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.8    
68.1    
68.4    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.0    
72.3    
72.6    
72.9    
73.2    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.8    
77.1    
77.4    
77.7    
78.0    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.3    
83.6    
83.9    
84.2    
84.5    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.1    
88.4    
88.7    
89.0    
89.3    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.6    
94.9    
95.2    
95.5    
95.8    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.7    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 21 predictions from path traversal
Error with prediction: snap lend_intergenic: 37123, rend_intergenic: 35287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58153, rend_intergenic: 55619  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68021, rend_intergenic: 64977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88095, rend_intergenic: 68304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95406, rend_intergenic: 93380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 8 predictions persist after filtering for low support