-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_19/scaffold_19_9272576-9417880

-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 GeneMark_model.79695_t
Valid prediction for Augustus_model.g30472.t1
Valid prediction for GlimmerHMM_glimmerT_45668-T1
Valid prediction for GeneMark_model.79690_t
Valid prediction for snap_scaffold_19-snap.1845-T1
Valid prediction for GlimmerHMM_glimmerT_45664-T1
Valid prediction for snap_scaffold_19-snap.1841-T1
Valid prediction for GeneMark_model.79710_t
Valid prediction for Augustus_model.g30465.t1
Valid prediction for GeneMark_model.79711_t
Valid prediction for GlimmerHMM_glimmerT_45649-T1
Valid prediction for snap_scaffold_19-snap.1822-T1
Valid prediction for snap_scaffold_19-snap.1838-T1
Valid prediction for GlimmerHMM_glimmerT_45665-T1
Valid prediction for GeneMark_model.79721_t
Valid prediction for GlimmerHMM_glimmerT_45651-T1
Valid prediction for GeneMark_model.79692_t
Couldn't classify 113922, 114071
Sorry, prediction pasa_asmbl_22382.p1 fails validation.
(CTG)	 TC	113922-114071	GT	AGG
(GAT)	 AG	114211-114315	GT	AGG
(ATG)	 AG	114395-114636	GT	AGG
(ACC)	 AG	114791-114833	GT	AGG
(GTG)	 AG	114968-115129	AC	AAA
-recovered pasa_asmbl_22382.p1, initial, 114395, 114636
-recovered pasa_asmbl_22382.p1, terminal, 114968, 115129
-recovered pasa_asmbl_22382.p1, internal, 114211, 114315
-recovered pasa_asmbl_22382.p1, internal, 114395, 114636
-recovered pasa_asmbl_22382.p1, internal, 114791, 114833
Valid prediction for snap_scaffold_19-snap.1824-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_19-snap.1829-T1
Valid prediction for Augustus_model.g30474.t1
Valid prediction for GlimmerHMM_glimmerT_45654-T1
Valid prediction for snap_scaffold_19-snap.1835-T1
Valid prediction for Augustus_model.g30469.t1
Valid prediction for snap_scaffold_19-snap.1840-T1
Valid prediction for GeneMark_model.79703_t
Valid prediction for GeneMark_model.79719_t
Valid prediction for GlimmerHMM_glimmerT_45660-T1
Valid prediction for GeneMark_model.79694_t
Valid prediction for GlimmerHMM_glimmerT_45662-T1
Valid prediction for snap_scaffold_19-snap.1837-T1
Valid prediction for Augustus_model.g30463.t1
Valid prediction for Augustus_model.g30464.t1
Valid prediction for GeneMark_model.79693_t
Valid prediction for GeneMark_model.79712_t
Valid prediction for snap_scaffold_19-snap.1832-T1
Valid prediction for GeneMark_model.79707_t
Valid prediction for snap_scaffold_19-snap.1833-T1
Valid prediction for GeneMark_model.79698_t
Valid prediction for GeneMark_model.79717_t
Valid prediction for GeneMark_model.79696_t
Valid prediction for GeneMark_model.79715_t
Valid prediction for GlimmerHMM_glimmerT_45653-T1
Valid prediction for GlimmerHMM_glimmerT_45652-T1
Valid prediction for GlimmerHMM_glimmerT_45667-T1
Valid prediction for snap_scaffold_19-snap.1848-T1
Valid prediction for snap_scaffold_19-snap.1828-T1
Valid prediction for snap_scaffold_19-snap.1847-T1
Valid prediction for GeneMark_model.79705_t
Valid prediction for Augustus_model.g30461.t1
Valid prediction for Augustus_model.g30470.t1
Valid prediction for snap_scaffold_19-snap.1825-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 GeneMark_model.79722_t
Valid prediction for Augustus_model.g30459.t1
Valid prediction for GlimmerHMM_glimmerT_45647-T1
Valid prediction for GlimmerHMM_glimmerT_45650-T1
Valid prediction for snap_scaffold_19-snap.1826-T1
Valid prediction for snap_scaffold_19-snap.1823-T1
Valid prediction for GeneMark_model.79720_t
Valid prediction for GeneMark_model.79709_t
Valid prediction for GeneMark_model.79714_t
Valid prediction for GeneMark_model.79700_t
Valid prediction for snap_scaffold_19-snap.1851-T1
Valid prediction for snap_scaffold_19-snap.1844-T1
Valid prediction for snap_scaffold_19-snap.1849-T1
Valid prediction for snap_scaffold_19-snap.1821-T1
Valid prediction for GeneMark_model.79701_t
Valid prediction for Augustus_model.g30460.t1
Valid prediction for snap_scaffold_19-snap.1846-T1
Valid prediction for GeneMark_model.79708_t
Valid prediction for Augustus_model.g30468.t1
Valid prediction for snap_scaffold_19-snap.1831-T1
Valid prediction for GlimmerHMM_glimmerT_45666-T1
Valid prediction for snap_scaffold_19-snap.1830-T1
Valid prediction for GlimmerHMM_glimmerT_45656-T1
Valid prediction for snap_scaffold_19-snap.1836-T1
Valid prediction for GlimmerHMM_glimmerT_45648-T1
Valid prediction for snap_scaffold_19-snap.1834-T1
Valid prediction for GeneMark_model.79699_t
Valid prediction for GeneMark_model.79713_t
Valid prediction for snap_scaffold_19-snap.1827-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GeneMark_model.79691_t
Valid prediction for GeneMark_model.79702_t
Valid prediction for GeneMark_model.79706_t
Valid prediction for GlimmerHMM_glimmerT_45669-T1
Valid prediction for Augustus_model.g30475.t1
Valid prediction for Augustus_model.g30466.t1
Valid prediction for snap_scaffold_19-snap.1843-T1
Valid prediction for GlimmerHMM_glimmerT_45661-T1
Valid prediction for Augustus_model.g30471.t1
Valid prediction for GlimmerHMM_glimmerT_45659-T1
Valid prediction for GeneMark_model.79688_t
Valid prediction for GlimmerHMM_glimmerT_45655-T1
Valid prediction for snap_scaffold_19-snap.1820-T1
Valid prediction for snap_scaffold_19-snap.1852-T1
Valid prediction for GlimmerHMM_glimmerT_45657-T1
Valid prediction for snap_scaffold_19-snap.1839-T1
Valid prediction for GeneMark_model.79689_t
Valid prediction for GeneMark_model.79716_t
Valid prediction for GeneMark_model.79697_t
Valid prediction for Augustus_model.g30473.t1
Valid prediction for GeneMark_model.79718_t
Valid prediction for snap_scaffold_19-snap.1842-T1
Valid prediction for GeneMark_model.79704_t
Valid prediction for Augustus_model.g30462.t1
Valid prediction for Augustus_model.g30467.t1
Valid prediction for GlimmerHMM_glimmerT_45663-T1
Valid prediction for GlimmerHMM_glimmerT_45658-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 67964, rend_intergenic: 64747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76394, rend_intergenic: 72560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83282, rend_intergenic: 76599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95916, rend_intergenic: 91054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106159, rend_intergenic: 99377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108233, rend_intergenic: 106264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 145305
-exon list size: 509


building trellis

0.2    
0.4    
0.6    
0.8    
1.0    
1.2    
1.4    
1.6    
1.8    
2.0    
2.2    
2.3    
2.5    
2.7    
2.9    
3.1    
3.3    
3.5    
3.7    
3.9    
4.1    
4.3    
4.5    
4.7    
4.9    
5.1    
5.3    
5.5    
5.7    
5.9    
6.1    
6.3    
6.5    
6.7    
6.8    
7.0    
7.2    
7.4    
7.6    
7.8    
8.0    
8.2    
8.4    
8.6    
8.8    
9.0    
9.2    
9.4    
9.6    
9.8    
10.0    
10.2    
10.4    
10.6    
10.8    
11.0    
11.2    
11.4    
11.5    
11.7    
11.9    
12.1    
12.3    
12.5    
12.7    
12.9    
13.1    
13.3    
13.5    
13.7    
13.9    
14.1    
14.3    
14.5    
14.7    
14.9    
15.1    
15.3    
15.5    
15.7    
15.9    
16.0    
16.2    
16.4    
16.6    
16.8    
17.0    
17.2    
17.4    
17.6    
17.8    
18.0    
18.2    
18.4    
18.6    
18.8    
19.0    
19.2    
19.4    
19.6    
19.8    
20.0    
20.2    
20.4    
20.5    
20.7    
20.9    
21.1    
21.3    
21.5    
21.7    
21.9    
22.1    
22.3    
22.5    
22.7    
22.9    
23.1    
23.3    
23.5    
23.7    
23.9    
24.1    
24.3    
24.5    
24.7    
24.9    
25.0    
25.2    
25.4    
25.6    
25.8    
26.0    
26.2    
26.4    
26.6    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
28.0    
28.2    
28.4    
28.6    
28.8    
29.0    
29.2    
29.4    
29.5    
29.7    
29.9    
30.1    
30.3    
30.5    
30.7    
30.9    
31.1    
31.3    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.7    
33.9    
34.1    
34.2    
34.4    
34.6    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
37.0    
37.2    
37.4    
37.6    
37.8    
38.0    
38.2    
38.4    
38.6    
38.7    
38.9    
39.1    
39.3    
39.5    
39.7    
39.9    
40.1    
40.3    
40.5    
40.7    
40.9    
41.1    
41.3    
41.5    
41.7    
41.9    
42.1    
42.3    
42.5    
42.7    
42.9    
43.1    
43.2    
43.4    
43.6    
43.8    
44.0    
44.2    
44.4    
44.6    
44.8    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.2    
46.4    
46.6    
46.8    
47.0    
47.2    
47.4    
47.6    
47.7    
47.9    
48.1    
48.3    
48.5    
48.7    
48.9    
49.1    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
50.9    
51.1    
51.3    
51.5    
51.7    
51.9    
52.1    
52.3    
52.4    
52.6    
52.8    
53.0    
53.2    
53.4    
53.6    
53.8    
54.0    
54.2    
54.4    
54.6    
54.8    
55.0    
55.2    
55.4    
55.6    
55.8    
56.0    
56.2    
56.4    
56.6    
56.8    
56.9    
57.1    
57.3    
57.5    
57.7    
57.9    
58.1    
58.3    
58.5    
58.7    
58.9    
59.1    
59.3    
59.5    
59.7    
59.9    
60.1    
60.3    
60.5    
60.7    
60.9    
61.1    
61.3    
61.4    
61.6    
61.8    
62.0    
62.2    
62.4    
62.6    
62.8    
63.0    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.4    
64.6    
64.8    
65.0    
65.2    
65.4    
65.6    
65.8    
65.9    
66.1    
66.3    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.7    
68.9    
69.1    
69.3    
69.5    
69.7    
69.9    
70.1    
70.3    
70.5    
70.6    
70.8    
71.0    
71.2    
71.4    
71.6    
71.8    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.4    
73.6    
73.8    
74.0    
74.2    
74.4    
74.6    
74.8    
75.0    
75.1    
75.3    
75.5    
75.7    
75.9    
76.1    
76.3    
76.5    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.1    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.6    
79.8    
80.0    
80.2    
80.4    
80.6    
80.8    
81.0    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.8    
84.0    
84.1    
84.3    
84.5    
84.7    
84.9    
85.1    
85.3    
85.5    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
86.9    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.3    
88.5    
88.6    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
92.2    
92.4    
92.6    
92.8    
93.0    
93.2    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.1    
97.3    
97.5    
97.7    
97.8    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 67964, rend_intergenic: 64747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76394, rend_intergenic: 72560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83282, rend_intergenic: 76599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95916, rend_intergenic: 91054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106159, rend_intergenic: 99377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108233, rend_intergenic: 106264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 133308 - 145305
-exon list size: 22


building trellis

4.2    
8.3    
12.5    
16.7    
20.8    
25.0    
29.2    
33.3    
37.5    
41.7    
45.8    
50.0    
54.2    
58.3    
62.5    
66.7    
70.8    
75.0    
79.2    
83.3    
87.5    
91.7    
95.8    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 133634 - 145305
-exon list size: 20


building trellis

4.5    
9.1    
13.6    
18.2    
22.7    
27.3    
31.8    
36.4    
40.9    
45.5    
50.0    
54.5    
59.1    
63.6    
68.2    
72.7    
77.3    
81.8    
86.4    
90.9    
95.5    
-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

-building DP trellis

-building trellis in range 133884 - 145305
-exon list size: 18


building trellis

5.0    
10.0    
15.0    
20.0    
25.0    
30.0    
35.0    
40.0    
45.0    
50.0    
55.0    
60.0    
65.0    
70.0    
75.0    
80.0    
85.0    
90.0    
95.0    
-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