-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_23/scaffold_23_8405382-8517537

-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_23-snap.1605-T1
Valid prediction for GeneMark_model.91422_t
Valid prediction for GeneMark_model.91436_t
Valid prediction for GlimmerHMM_glimmerT_52724-T1
Valid prediction for GlimmerHMM_glimmerT_52720-T1
Valid prediction for pasa_asmbl_31070.p1
Valid prediction for snap_scaffold_23-snap.1621-T1
Valid prediction for GeneMark_model.91427_t
Valid prediction for snap_scaffold_23-snap.1618-T1
Valid prediction for snap_scaffold_23-snap.1606-T1
Valid prediction for snap_scaffold_23-snap.1609-T1
Valid prediction for Augustus_model.g35451.t1
Valid prediction for GlimmerHMM_glimmerT_52718-T1
Valid prediction for GeneMark_model.91424_t
Valid prediction for snap_scaffold_23-snap.1628-T1
Valid prediction for snap_scaffold_23-snap.1626-T1
Valid prediction for GeneMark_model.91420_t
Valid prediction for GeneMark_model.91416_t
Valid prediction for Augustus_model.g35449.t1
Valid prediction for GeneMark_model.91417_t
Valid prediction for GeneMark_model.91411_t
Valid prediction for GeneMark_model.91409_t
Valid prediction for snap_scaffold_23-snap.1615-T1
Valid prediction for GeneMark_model.91433_t
Valid prediction for snap_scaffold_23-snap.1611-T1
Valid prediction for HiQ_model.g35448.t1
Valid prediction for GeneMark_model.91414_t
Valid prediction for snap_scaffold_23-snap.1613-T1
Valid prediction for GlimmerHMM_glimmerT_52731-T1
Valid prediction for GeneMark_model.91401_t
Valid prediction for snap_scaffold_23-snap.1622-T1
Valid prediction for GlimmerHMM_glimmerT_52719-T1
Valid prediction for GeneMark_model.91435_t
Valid prediction for Augustus_model.g35455.t1
Valid prediction for GeneMark_model.91429_t
Valid prediction for GlimmerHMM_glimmerT_52727-T1
Valid prediction for GeneMark_model.91406_t
Valid prediction for CodingQuarry_transcript_35697-T1
Valid prediction for GeneMark_model.91408_t
Valid prediction for GeneMark_model.91403_t
Valid prediction for GeneMark_model.91421_t
Valid prediction for GeneMark_model.91437_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 GlimmerHMM_glimmerT_52722-T1
Valid prediction for snap_scaffold_23-snap.1627-T1
Valid prediction for snap_scaffold_23-snap.1607-T1
Valid prediction for GlimmerHMM_glimmerT_52732-T1
Valid prediction for GeneMark_model.91418_t
Valid prediction for GlimmerHMM_glimmerT_52725-T1
Valid prediction for GeneMark_model.91432_t
Valid prediction for snap_scaffold_23-snap.1616-T1
Valid prediction for GlimmerHMM_glimmerT_52721-T1
Valid prediction for snap_scaffold_23-snap.1608-T1
Valid prediction for GeneMark_model.91419_t
Valid prediction for Augustus_model.g35456.t1
Valid prediction for GeneMark_model.91405_t
Valid prediction for GeneMark_model.91415_t
Valid prediction for GeneMark_model.91431_t
Valid prediction for Augustus_model.g35454.t1
Valid prediction for GeneMark_model.91438_t
Valid prediction for snap_scaffold_23-snap.1612-T1
Valid prediction for GeneMark_model.91413_t
Valid prediction for Augustus_model.g35450.t1
Valid prediction for GeneMark_model.91412_t
Valid prediction for GlimmerHMM_glimmerT_52730-T1
Valid prediction for GeneMark_model.91428_t
Valid prediction for GeneMark_model.91426_t
Valid prediction for GeneMark_model.91407_t
Valid prediction for GeneMark_model.91404_t
Valid prediction for GeneMark_model.91425_t
Valid prediction for snap_scaffold_23-snap.1617-T1
Valid prediction for GlimmerHMM_glimmerT_52726-T1
Valid prediction for GlimmerHMM_glimmerT_52728-T1
Valid prediction for GlimmerHMM_glimmerT_52723-T1
Couldn't classify 92662, 93085
Sorry, prediction pasa_asmbl_31931.p1 fails validation.
(ATG)	 AA	92507-92520	GT	AAG
(CGT)	 AG	92662-93085	GC	CCG
-recovered pasa_asmbl_31931.p1, initial, 92507, 92520
-recovered pasa_asmbl_31931.p1, internal, 92662, 93085
Valid prediction for GeneMark_model.91439_t
Couldn't classify 93905, 94585
Sorry, prediction pasa_asmbl_31798.p1 fails validation.
(ACC)	 CC	93905-94585	CT	AGC
Valid prediction for snap_scaffold_23-snap.1624-T1
Valid prediction for GeneMark_model.91402_t
Valid prediction for GeneMark_model.91410_t
Valid prediction for snap_scaffold_23-snap.1619-T1
Valid prediction for snap_scaffold_23-snap.1610-T1
Valid prediction for Augustus_model.g35452.t1
Valid prediction for Augustus_model.g35453.t1
Valid prediction for GeneMark_model.91423_t
Valid prediction for GlimmerHMM_glimmerT_52729-T1
Valid prediction for snap_scaffold_23-snap.1614-T1
Valid prediction for snap_scaffold_23-snap.1629-T1
Valid prediction for snap_scaffold_23-snap.1623-T1
Valid prediction for GeneMark_model.91430_t
Valid prediction for snap_scaffold_23-snap.1620-T1
Valid prediction for snap_scaffold_23-snap.1625-T1
Valid prediction for GeneMark_model.91434_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19650, rend_intergenic: 17693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38273, rend_intergenic: 30903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43622, rend_intergenic: 42437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47663, rend_intergenic: 44100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52062, rend_intergenic: 49240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60738, rend_intergenic: 54827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68457, rend_intergenic: 65319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95752, rend_intergenic: 91215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109839, rend_intergenic: 98530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 112156
-exon list size: 395


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.0    
2.3    
2.5    
2.8    
3.0    
3.3    
3.5    
3.8    
4.0    
4.3    
4.5    
4.8    
5.0    
5.3    
5.5    
5.8    
6.0    
6.3    
6.5    
6.8    
7.1    
7.3    
7.6    
7.8    
8.1    
8.3    
8.6    
8.8    
9.1    
9.3    
9.6    
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    
13.4    
13.6    
13.9    
14.1    
14.4    
14.6    
14.9    
15.1    
15.4    
15.6    
15.9    
16.1    
16.4    
16.6    
16.9    
17.1    
17.4    
17.6    
17.9    
18.1    
18.4    
18.6    
18.9    
19.1    
19.4    
19.6    
19.9    
20.2    
20.4    
20.7    
20.9    
21.2    
21.4    
21.7    
21.9    
22.2    
22.4    
22.7    
22.9    
23.2    
23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.2    
28.5    
28.7    
29.0    
29.2    
29.5    
29.7    
30.0    
30.2    
30.5    
30.7    
31.0    
31.2    
31.5    
31.7    
32.0    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.3    
35.5    
35.8    
36.0    
36.3    
36.5    
36.8    
37.0    
37.3    
37.5    
37.8    
38.0    
38.3    
38.5    
38.8    
39.0    
39.3    
39.5    
39.8    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.6    
41.8    
42.1    
42.3    
42.6    
42.8    
43.1    
43.3    
43.6    
43.8    
44.1    
44.3    
44.6    
44.8    
45.1    
45.3    
45.6    
45.8    
46.1    
46.3    
46.6    
46.9    
47.1    
47.4    
47.6    
47.9    
48.1    
48.4    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.1    
51.4    
51.6    
51.9    
52.1    
52.4    
52.6    
52.9    
53.1    
53.4    
53.7    
53.9    
54.2    
54.4    
54.7    
54.9    
55.2    
55.4    
55.7    
55.9    
56.2    
56.4    
56.7    
56.9    
57.2    
57.4    
57.7    
57.9    
58.2    
58.4    
58.7    
58.9    
59.2    
59.4    
59.7    
59.9    
60.2    
60.5    
60.7    
61.0    
61.2    
61.5    
61.7    
62.0    
62.2    
62.5    
62.7    
63.0    
63.2    
63.5    
63.7    
64.0    
64.2    
64.5    
64.7    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.0    
68.3    
68.5    
68.8    
69.0    
69.3    
69.5    
69.8    
70.0    
70.3    
70.5    
70.8    
71.0    
71.3    
71.5    
71.8    
72.0    
72.3    
72.5    
72.8    
73.0    
73.3    
73.6    
73.8    
74.1    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.1    
77.3    
77.6    
77.8    
78.1    
78.3    
78.6    
78.8    
79.1    
79.3    
79.6    
79.8    
80.1    
80.4    
80.6    
80.9    
81.1    
81.4    
81.6    
81.9    
82.1    
82.4    
82.6    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.4    
84.6    
84.9    
85.1    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
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    
90.4    
90.7    
90.9    
91.2    
91.4    
91.7    
91.9    
92.2    
92.4    
92.7    
92.9    
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 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 19650, rend_intergenic: 17693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38273, rend_intergenic: 30903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43622, rend_intergenic: 42437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47663, rend_intergenic: 44100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52062, rend_intergenic: 49240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60738, rend_intergenic: 54827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68457, rend_intergenic: 65319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95752, rend_intergenic: 91215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109839, rend_intergenic: 98530  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