-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_8315130-8485904

-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.1595-T1
Valid prediction for snap_scaffold_23-snap.1578-T1
Valid prediction for snap_scaffold_23-snap.1602-T1
Valid prediction for GlimmerHMM_glimmerT_51466-T1
Valid prediction for snap_scaffold_23-snap.1582-T1
Valid prediction for snap_scaffold_23-snap.1575-T1
Valid prediction for HiQ_model.g34428.t1
Valid prediction for pasa_asmbl_31770.p1
Valid prediction for snap_scaffold_23-snap.1581-T1
Valid prediction for snap_scaffold_23-snap.1611-T1
Valid prediction for snap_scaffold_23-snap.1610-T1
Valid prediction for snap_scaffold_23-snap.1606-T1
Valid prediction for GlimmerHMM_glimmerT_51456-T1
Valid prediction for CodingQuarry_transcript_35765-T1
Valid prediction for Augustus_model.g34421.t1
Valid prediction for GlimmerHMM_glimmerT_51454-T1
Valid prediction for snap_scaffold_23-snap.1584-T1
Valid prediction for snap_scaffold_23-snap.1592-T1
Valid prediction for pasa_asmbl_31773.p1
Valid prediction for snap_scaffold_23-snap.1594-T1
Valid prediction for Augustus_model.g34423.t1
Valid prediction for snap_scaffold_23-snap.1598-T1
Valid prediction for GlimmerHMM_glimmerT_51451-T1
Valid prediction for HiQ_model.g34425.t1
Valid prediction for CodingQuarry_transcript_35763-T1
Valid prediction for GlimmerHMM_glimmerT_51452-T1
Valid prediction for GlimmerHMM_glimmerT_51461-T1
Valid prediction for GlimmerHMM_glimmerT_51450-T1
Valid prediction for Augustus_model.g34429.t1
Valid prediction for GlimmerHMM_glimmerT_51458-T1
Valid prediction for snap_scaffold_23-snap.1600-T1
Valid prediction for snap_scaffold_23-snap.1591-T1
Valid prediction for Augustus_model.g34431.t1
Valid prediction for GlimmerHMM_glimmerT_51463-T1
Valid prediction for Augustus_model.g34424.t1
Valid prediction for snap_scaffold_23-snap.1587-T1
Valid prediction for snap_scaffold_23-snap.1589-T1
Valid prediction for snap_scaffold_23-snap.1608-T1
Valid prediction for GlimmerHMM_glimmerT_51457-T1
Valid prediction for Augustus_model.g34427.t1
Valid prediction for snap_scaffold_23-snap.1603-T1
Valid prediction for CodingQuarry_transcript_35764-T1
Valid prediction for GlimmerHMM_glimmerT_51453-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: -)Couldn't classify 62272, 62952
Sorry, prediction pasa_asmbl_31083.p1 fails validation.
(ACC)	 CC	62272-62952	CT	AGC
Valid prediction for snap_scaffold_23-snap.1572-T1
Valid prediction for snap_scaffold_23-snap.1604-T1
Valid prediction for Augustus_model.g34418.t1
Valid prediction for Augustus_model.g34432.t1
Valid prediction for GlimmerHMM_glimmerT_51462-T1
Valid prediction for GlimmerHMM_glimmerT_51449-T1
Valid prediction for Augustus_model.g34430.t1
Valid prediction for snap_scaffold_23-snap.1579-T1
Valid prediction for snap_scaffold_23-snap.1612-T1
Couldn't classify 61029, 61452
Sorry, prediction pasa_asmbl_31200.p1 fails validation.
(ATG)	 AA	60874-60887	GT	AAG
(CGT)	 AG	61029-61452	GC	CCG
-recovered pasa_asmbl_31200.p1, initial, 60874, 60887
-recovered pasa_asmbl_31200.p1, internal, 61029, 61452
Valid prediction for snap_scaffold_23-snap.1573-T1
Valid prediction for GlimmerHMM_glimmerT_51455-T1
Valid prediction for snap_scaffold_23-snap.1585-T1
Valid prediction for snap_scaffold_23-snap.1609-T1
Valid prediction for snap_scaffold_23-snap.1605-T1
Valid prediction for snap_scaffold_23-snap.1607-T1
Valid prediction for snap_scaffold_23-snap.1601-T1
Valid prediction for Augustus_model.g34420.t1
Valid prediction for Augustus_model.g34419.t1
Valid prediction for snap_scaffold_23-snap.1586-T1
Valid prediction for snap_scaffold_23-snap.1593-T1
Valid prediction for Augustus_model.g34422.t1
Valid prediction for Augustus_model.g34426.t1
Valid prediction for GlimmerHMM_glimmerT_51464-T1
Valid prediction for snap_scaffold_23-snap.1576-T1
Valid prediction for snap_scaffold_23-snap.1580-T1
Valid prediction for snap_scaffold_23-snap.1571-T1
Valid prediction for GlimmerHMM_glimmerT_51465-T1
Valid prediction for snap_scaffold_23-snap.1577-T1
Valid prediction for snap_scaffold_23-snap.1583-T1
Sorry, intron length (4) is less than minimum required (10)
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_23-snap.1574-T1
Valid prediction for GlimmerHMM_glimmerT_51459-T1
Valid prediction for snap_scaffold_23-snap.1590-T1
Valid prediction for snap_scaffold_23-snap.1588-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_51460-T1
Valid prediction for snap_scaffold_23-snap.1597-T1
Valid prediction for snap_scaffold_23-snap.1596-T1
Valid prediction for snap_scaffold_23-snap.1599-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 24242, rend_intergenic: 24110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28511, rend_intergenic: 24787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36137, rend_intergenic: 30885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53436, rend_intergenic: 47399  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75983, rend_intergenic: 72347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81531, rend_intergenic: 78939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84360, rend_intergenic: 82349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93116, rend_intergenic: 88344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109902, rend_intergenic: 107966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125352, rend_intergenic: 121155  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133874, rend_intergenic: 125419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137915, rend_intergenic: 134352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142442, rend_intergenic: 139510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151191, rend_intergenic: 145079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158709, rend_intergenic: 155571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 170775
-exon list size: 302


building trellis

0.3    
0.7    
1.0    
1.3    
1.6    
2.0    
2.3    
2.6    
3.0    
3.3    
3.6    
3.9    
4.3    
4.6    
4.9    
5.3    
5.6    
5.9    
6.2    
6.6    
6.9    
7.2    
7.6    
7.9    
8.2    
8.6    
8.9    
9.2    
9.5    
9.9    
10.2    
10.5    
10.9    
11.2    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.8    
14.1    
14.5    
14.8    
15.1    
15.5    
15.8    
16.1    
16.4    
16.8    
17.1    
17.4    
17.8    
18.1    
18.4    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.4    
23.7    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.3    
26.6    
27.0    
27.3    
27.6    
28.0    
28.3    
28.6    
28.9    
29.3    
29.6    
29.9    
30.3    
30.6    
30.9    
31.2    
31.6    
31.9    
32.2    
32.6    
32.9    
33.2    
33.6    
33.9    
34.2    
34.5    
34.9    
35.2    
35.5    
35.9    
36.2    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.4    
41.8    
42.1    
42.4    
42.8    
43.1    
43.4    
43.8    
44.1    
44.4    
44.7    
45.1    
45.4    
45.7    
46.1    
46.4    
46.7    
47.0    
47.4    
47.7    
48.0    
48.4    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.6    
52.0    
52.3    
52.6    
53.0    
53.3    
53.6    
53.9    
54.3    
54.6    
54.9    
55.3    
55.6    
55.9    
56.2    
56.6    
56.9    
57.2    
57.6    
57.9    
58.2    
58.6    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.8    
64.1    
64.5    
64.8    
65.1    
65.5    
65.8    
66.1    
66.4    
66.8    
67.1    
67.4    
67.8    
68.1    
68.4    
68.8    
69.1    
69.4    
69.7    
70.1    
70.4    
70.7    
71.1    
71.4    
71.7    
72.0    
72.4    
72.7    
73.0    
73.4    
73.7    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.3    
76.6    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.6    
81.9    
82.2    
82.6    
82.9    
83.2    
83.6    
83.9    
84.2    
84.5    
84.9    
85.2    
85.5    
85.9    
86.2    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.8    
89.1    
89.5    
89.8    
90.1    
90.5    
90.8    
91.1    
91.4    
91.8    
92.1    
92.4    
92.8    
93.1    
93.4    
93.8    
94.1    
94.4    
94.7    
95.1    
95.4    
95.7    
96.1    
96.4    
96.7    
97.0    
97.4    
97.7    
98.0    
98.4    
98.7    
99.0    
99.3    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 24242, rend_intergenic: 24110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28511, rend_intergenic: 24787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36137, rend_intergenic: 30885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53436, rend_intergenic: 47399  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75983, rend_intergenic: 72347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81531, rend_intergenic: 78939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84360, rend_intergenic: 82349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93116, rend_intergenic: 88344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109902, rend_intergenic: 107966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125352, rend_intergenic: 121155  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133874, rend_intergenic: 125419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137915, rend_intergenic: 134352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142442, rend_intergenic: 139510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151191, rend_intergenic: 145079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158709, rend_intergenic: 155571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 155622 - 170775
-exon list size: 12


building trellis

7.1    
14.3    
21.4    
28.6    
35.7    
42.9    
50.0    
57.1    
64.3    
71.4    
78.6    
85.7    
92.9    
-found 3 predictions from path traversal

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