-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_7674871-7803719

-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_51344-T1
Valid prediction for snap_scaffold_23-snap.1429-T1
Valid prediction for HiQ_model.g34349.t1
Valid prediction for pasa_asmbl_31722.p1
Valid prediction for CodingQuarry_transcript_35732-T1
Valid prediction for GlimmerHMM_glimmerT_51354-T1
Valid prediction for GlimmerHMM_glimmerT_51357-T1
Valid prediction for GlimmerHMM_glimmerT_51353-T1
Valid prediction for Augustus_model.g34353.t1
Valid prediction for CodingQuarry_transcript_35730-T1
Valid prediction for GlimmerHMM_glimmerT_51356-T1
Valid prediction for Augustus_model.g34357.t1
Valid prediction for GlimmerHMM_glimmerT_51361-T1
Valid prediction for snap_scaffold_23-snap.1440-T1
Valid prediction for Augustus_model.g34355.t1
Valid prediction for GlimmerHMM_glimmerT_51349-T1
Valid prediction for pasa_asmbl_31714.p1
Valid prediction for Augustus_model.g34354.t1
Valid prediction for Augustus_model.g34350.t1
Valid prediction for HiQ_model.g34347.t1
Valid prediction for GlimmerHMM_glimmerT_51343-T1
Valid prediction for CodingQuarry_transcript_35731-T1
Valid prediction for GlimmerHMM_glimmerT_51350-T1
Valid prediction for pasa_asmbl_31723.p1
Valid prediction for snap_scaffold_23-snap.1428-T1
Valid prediction for snap_scaffold_23-snap.1447-T1
Valid prediction for snap_scaffold_23-snap.1448-T1
Valid prediction for snap_scaffold_23-snap.1436-T1
Valid prediction for HiQ_model.g34346.t1
Valid prediction for GlimmerHMM_glimmerT_51355-T1
Valid prediction for snap_scaffold_23-snap.1437-T1
Valid prediction for CodingQuarry_transcript_35729-T1
Valid prediction for Augustus_model.g34352.t1
Valid prediction for GlimmerHMM_glimmerT_51351-T1
Valid prediction for snap_scaffold_23-snap.1445-T1
Valid prediction for GlimmerHMM_glimmerT_51359-T1
Valid prediction for snap_scaffold_23-snap.1438-T1
Valid prediction for snap_scaffold_23-snap.1434-T1
Couldn't classify 35770, 35887
Couldn't classify 36328, 36414
Sorry, prediction pasa_asmbl_31726.p1 fails validation.
(AGG)	 TG	35770-35887	GT	AGG
(GCT)	 AG	36086-36237	GT	CTG
(GTC)	 AG	36328-36414	GA	AGG
-recovered pasa_asmbl_31726.p1, internal, 36086, 36237
Valid prediction for snap_scaffold_23-snap.1431-T1
Valid prediction for snap_scaffold_23-snap.1450-T1
Valid prediction for GlimmerHMM_glimmerT_51362-T1
Valid prediction for GlimmerHMM_glimmerT_51341-T1
Valid prediction for Augustus_model.g34351.t1
Valid prediction for Augustus_model.g34356.t1
Valid prediction for snap_scaffold_23-snap.1430-T1
Valid prediction for CodingQuarry_transcript_35733-T1
Valid prediction for GlimmerHMM_glimmerT_51352-T1
Valid prediction for snap_scaffold_23-snap.1424-T1
Valid prediction for GlimmerHMM_glimmerT_51348-T1
Valid prediction for CodingQuarry_transcript_35728-T1
Valid prediction for pasa_asmbl_31727.p1

-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_51345-T1
Valid prediction for snap_scaffold_23-snap.1444-T1
Valid prediction for Augustus_model.g34358.t1
Valid prediction for snap_scaffold_23-snap.1426-T1
Valid prediction for HiQ_model.g34345.t1
Valid prediction for pasa_asmbl_31045.p1
Valid prediction for snap_scaffold_23-snap.1451-T1
Valid prediction for GlimmerHMM_glimmerT_51365-T1
Valid prediction for snap_scaffold_23-snap.1435-T1
Valid prediction for GlimmerHMM_glimmerT_51358-T1
Valid prediction for GlimmerHMM_glimmerT_51342-T1
Valid prediction for CodingQuarry_transcript_35726-T1
Valid prediction for GlimmerHMM_glimmerT_51360-T1
Couldn't classify 106459, 106520
Sorry, prediction pasa_asmbl_31243.p2 fails validation.
(ATG)	 CC	105710-105760	GT	CTG
(GTC)	 AG	105851-105971	GT	AGG
(ACC)	 AG	106094-106270	GT	TGG
(AGC)	 AG	106459-106520	CG	AAC
-recovered pasa_asmbl_31243.p2, initial, 105710, 105760
-recovered pasa_asmbl_31243.p2, internal, 105851, 105971
-recovered pasa_asmbl_31243.p2, internal, 106094, 106270
Valid prediction for snap_scaffold_23-snap.1443-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for snap_scaffold_23-snap.1427-T1
Valid prediction for snap_scaffold_23-snap.1433-T1
Valid prediction for snap_scaffold_23-snap.1425-T1
Valid prediction for snap_scaffold_23-snap.1449-T1
Valid prediction for GlimmerHMM_glimmerT_51346-T1
Valid prediction for GlimmerHMM_glimmerT_51347-T1
Valid prediction for snap_scaffold_23-snap.1432-T1
Valid prediction for CodingQuarry_transcript_35727-T1
Valid prediction for snap_scaffold_23-snap.1441-T1
Valid prediction for Augustus_model.g34348.t1
Valid prediction for GlimmerHMM_glimmerT_51363-T1
Valid prediction for snap_scaffold_23-snap.1442-T1
Valid prediction for snap_scaffold_23-snap.1446-T1
Valid prediction for snap_scaffold_23-snap.1439-T1
Valid prediction for GlimmerHMM_glimmerT_51364-T1
Valid prediction for snap_scaffold_23-snap.1423-T1
Sorry, intron length (6) is less than minimum required (10)

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 49839, rend_intergenic: 47335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54268, rend_intergenic: 53247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62625, rend_intergenic: 58021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64488, rend_intergenic: 62926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85156, rend_intergenic: 68156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106913, rend_intergenic: 86972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121278, rend_intergenic: 113816  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123279, rend_intergenic: 122829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126632, rend_intergenic: 123792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 128849
-exon list size: 305


building trellis

0.3    
0.7    
1.0    
1.3    
1.6    
2.0    
2.3    
2.6    
2.9    
3.3    
3.6    
3.9    
4.2    
4.6    
4.9    
5.2    
5.5    
5.9    
6.2    
6.5    
6.8    
7.2    
7.5    
7.8    
8.1    
8.5    
8.8    
9.1    
9.4    
9.8    
10.1    
10.4    
10.7    
11.1    
11.4    
11.7    
12.1    
12.4    
12.7    
13.0    
13.4    
13.7    
14.0    
14.3    
14.7    
15.0    
15.3    
15.6    
16.0    
16.3    
16.6    
16.9    
17.3    
17.6    
17.9    
18.2    
18.6    
18.9    
19.2    
19.5    
19.9    
20.2    
20.5    
20.8    
21.2    
21.5    
21.8    
22.1    
22.5    
22.8    
23.1    
23.5    
23.8    
24.1    
24.4    
24.8    
25.1    
25.4    
25.7    
26.1    
26.4    
26.7    
27.0    
27.4    
27.7    
28.0    
28.3    
28.7    
29.0    
29.3    
29.6    
30.0    
30.3    
30.6    
30.9    
31.3    
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    
35.8    
36.2    
36.5    
36.8    
37.1    
37.5    
37.8    
38.1    
38.4    
38.8    
39.1    
39.4    
39.7    
40.1    
40.4    
40.7    
41.0    
41.4    
41.7    
42.0    
42.3    
42.7    
43.0    
43.3    
43.6    
44.0    
44.3    
44.6    
45.0    
45.3    
45.6    
45.9    
46.3    
46.6    
46.9    
47.2    
47.6    
47.9    
48.2    
48.5    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.5    
51.8    
52.1    
52.4    
52.8    
53.1    
53.4    
53.7    
54.1    
54.4    
54.7    
55.0    
55.4    
55.7    
56.0    
56.4    
56.7    
57.0    
57.3    
57.7    
58.0    
58.3    
58.6    
59.0    
59.3    
59.6    
59.9    
60.3    
60.6    
60.9    
61.2    
61.6    
61.9    
62.2    
62.5    
62.9    
63.2    
63.5    
63.8    
64.2    
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    
68.7    
69.1    
69.4    
69.7    
70.0    
70.4    
70.7    
71.0    
71.3    
71.7    
72.0    
72.3    
72.6    
73.0    
73.3    
73.6    
73.9    
74.3    
74.6    
74.9    
75.2    
75.6    
75.9    
76.2    
76.5    
76.9    
77.2    
77.5    
77.9    
78.2    
78.5    
78.8    
79.2    
79.5    
79.8    
80.1    
80.5    
80.8    
81.1    
81.4    
81.8    
82.1    
82.4    
82.7    
83.1    
83.4    
83.7    
84.0    
84.4    
84.7    
85.0    
85.3    
85.7    
86.0    
86.3    
86.6    
87.0    
87.3    
87.6    
87.9    
88.3    
88.6    
88.9    
89.3    
89.6    
89.9    
90.2    
90.6    
90.9    
91.2    
91.5    
91.9    
92.2    
92.5    
92.8    
93.2    
93.5    
93.8    
94.1    
94.5    
94.8    
95.1    
95.4    
95.8    
96.1    
96.4    
96.7    
97.1    
97.4    
97.7    
98.0    
98.4    
98.7    
99.0    
99.3    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 49839, rend_intergenic: 47335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54268, rend_intergenic: 53247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62625, rend_intergenic: 58021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64488, rend_intergenic: 62926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85156, rend_intergenic: 68156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106913, rend_intergenic: 86972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121278, rend_intergenic: 113816  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123279, rend_intergenic: 122829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126632, rend_intergenic: 123792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support