-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_6963724-7159419

-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_18-snap.1503-T1
Valid prediction for GlimmerHMM_glimmerT_42579-T1
Valid prediction for GlimmerHMM_glimmerT_42580-T1
Valid prediction for Augustus_model.g28369.t1
Valid prediction for snap_scaffold_18-snap.1495-T1
Valid prediction for snap_scaffold_18-snap.1479-T1
Valid prediction for GlimmerHMM_glimmerT_42598-T1
Valid prediction for snap_scaffold_18-snap.1482-T1
Valid prediction for Augustus_model.g28378.t1
Valid prediction for Augustus_model.g28384.t1
Valid prediction for Augustus_model.g28368.t1
Valid prediction for GlimmerHMM_glimmerT_42592-T1
Couldn't classify 58080, 58081
Sorry, prediction pasa_asmbl_20702.p1 fails validation.
(ATG)	 CA	58080-58081	GT	ATG
(GTT)	 AG	58709-58798	GT	ACG
(ACT)	 AG	58912-59033	GT	CGG
(GTA)	 AG	59182-59372	TT	AGT
-recovered pasa_asmbl_20702.p1, terminal, 59182, 59372
-recovered pasa_asmbl_20702.p1, internal, 58709, 58798
-recovered pasa_asmbl_20702.p1, internal, 58912, 59033
Valid prediction for snap_scaffold_18-snap.1497-T1
Valid prediction for snap_scaffold_18-snap.1501-T1
Valid prediction for Augustus_model.g28377.t1
Valid prediction for snap_scaffold_18-snap.1491-T1
Valid prediction for Augustus_model.g28380.t1
Valid prediction for GlimmerHMM_glimmerT_42590-T1
Valid prediction for Augustus_model.g28373.t1
Valid prediction for pasa_asmbl_20707.p1
Valid prediction for snap_scaffold_18-snap.1467-T1
Valid prediction for snap_scaffold_18-snap.1471-T1
Valid prediction for GlimmerHMM_glimmerT_42591-T1
Valid prediction for snap_scaffold_18-snap.1508-T1
Couldn't classify 37091, 37198
Sorry, prediction pasa_asmbl_20701.p1 fails validation.
(GAT)	 AG	37091-37198	GT	TGG
(AAC)	 AG	38746-38925	GT	AGG
(GTG)	 AG	39342-39429	GT	GGG
(TGT)	 AG	40895-41010	GT	TGG
(TGG)	 AG	41140-41289	CA	AAC
-recovered pasa_asmbl_20701.p1, terminal, 41140, 41289
-recovered pasa_asmbl_20701.p1, internal, 37091, 37198
-recovered pasa_asmbl_20701.p1, internal, 38746, 38925
-recovered pasa_asmbl_20701.p1, internal, 39342, 39429
-recovered pasa_asmbl_20701.p1, internal, 40895, 41010
Valid prediction for Augustus_model.g28370.t1
Valid prediction for Augustus_model.g28379.t1
Valid prediction for snap_scaffold_18-snap.1485-T1
Valid prediction for snap_scaffold_18-snap.1470-T1
Valid prediction for Augustus_model.g28366.t1
Valid prediction for Augustus_model.g28367.t1
Valid prediction for CodingQuarry_transcript_23797-T1
Valid prediction for snap_scaffold_18-snap.1506-T1
Valid prediction for GlimmerHMM_glimmerT_42593-T1
Valid prediction for snap_scaffold_18-snap.1489-T1
Couldn't classify 58080, 58081
Sorry, prediction CodingQuarry_transcript_23796-T1 fails validation.
(ATG)	 CA	58080-58081	GT	ATG
(GTT)	 AG	58709-58798	GT	ACG
(ACT)	 AG	58912-59033	GT	CGG
(GTA)	 AG	59182-59372	TT	AGT
-recovered CodingQuarry_transcript_23796-T1, terminal, 59182, 59372
-recovered CodingQuarry_transcript_23796-T1, internal, 58709, 58798
-recovered CodingQuarry_transcript_23796-T1, internal, 58912, 59033
Valid prediction for pasa_asmbl_20704.p1
Valid prediction for snap_scaffold_18-snap.1466-T1
Valid prediction for GlimmerHMM_glimmerT_42582-T1
Valid prediction for snap_scaffold_18-snap.1487-T1
Valid prediction for snap_scaffold_18-snap.1486-T1
Valid prediction for snap_scaffold_18-snap.1494-T1
Valid prediction for CodingQuarry_transcript_23800-T1
Valid prediction for HiQ_model.g28386.t1
Valid prediction for GlimmerHMM_glimmerT_42589-T1
Valid prediction for GlimmerHMM_glimmerT_42587-T1
Valid prediction for snap_scaffold_18-snap.1476-T1
Valid prediction for CodingQuarry_transcript_23795-T1
Valid prediction for snap_scaffold_18-snap.1469-T1
Valid prediction for Augustus_model.g28375.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 snap_scaffold_18-snap.1492-T1
Valid prediction for pasa_asmbl_19920.p1
Valid prediction for snap_scaffold_18-snap.1490-T1
Valid prediction for CodingQuarry_transcript_23798-T1
Valid prediction for snap_scaffold_18-snap.1505-T1
Valid prediction for GlimmerHMM_glimmerT_42594-T1
Valid prediction for snap_scaffold_18-snap.1502-T1
Valid prediction for GlimmerHMM_glimmerT_42595-T1
Valid prediction for GlimmerHMM_glimmerT_42581-T1
Valid prediction for snap_scaffold_18-snap.1478-T1
Valid prediction for Augustus_model.g28374.t1
Valid prediction for Augustus_model.g28372.t1
Valid prediction for snap_scaffold_18-snap.1481-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_42586-T1
Valid prediction for GlimmerHMM_glimmerT_42597-T1
Valid prediction for snap_scaffold_18-snap.1484-T1
Valid prediction for GlimmerHMM_glimmerT_42583-T1
Valid prediction for GlimmerHMM_glimmerT_42596-T1
Valid prediction for Augustus_model.g28371.t1
Valid prediction for snap_scaffold_18-snap.1474-T1
Valid prediction for GlimmerHMM_glimmerT_42585-T1
Valid prediction for snap_scaffold_18-snap.1468-T1
Valid prediction for snap_scaffold_18-snap.1477-T1
Valid prediction for CodingQuarry_transcript_23799-T1
Valid prediction for snap_scaffold_18-snap.1483-T1
Valid prediction for GlimmerHMM_glimmerT_42588-T1
Valid prediction for Augustus_model.g28381.t1
Valid prediction for snap_scaffold_18-snap.1507-T1
Valid prediction for snap_scaffold_18-snap.1496-T1
Valid prediction for snap_scaffold_18-snap.1480-T1
Valid prediction for snap_scaffold_18-snap.1499-T1
Valid prediction for HiQ_model.g28376.t1
Valid prediction for snap_scaffold_18-snap.1498-T1
Valid prediction for snap_scaffold_18-snap.1475-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_18-snap.1493-T1
Valid prediction for snap_scaffold_18-snap.1488-T1
Valid prediction for Augustus_model.g28382.t1
Valid prediction for snap_scaffold_18-snap.1500-T1
Valid prediction for Augustus_model.g28385.t1
Valid prediction for snap_scaffold_18-snap.1472-T1
Valid prediction for GlimmerHMM_glimmerT_42584-T1
Valid prediction for Augustus_model.g28383.t1
Valid prediction for snap_scaffold_18-snap.1504-T1
Valid prediction for snap_scaffold_18-snap.1473-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14838, rend_intergenic: 9876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23588, rend_intergenic: 15421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41289, rend_intergenic: 31652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50072, rend_intergenic: 48611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91522, rend_intergenic: 88513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106852, rend_intergenic: 105283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111380, rend_intergenic: 108286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132162, rend_intergenic: 122498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167687, rend_intergenic: 158646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169209, rend_intergenic: 168144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172558, rend_intergenic: 170021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174349, rend_intergenic: 172682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 195696
-exon list size: 317


building trellis

0.3    
0.6    
0.9    
1.3    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.6    
17.9    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.5    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.5    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.4    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.7    
99.1    
99.4    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 14838, rend_intergenic: 9876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23588, rend_intergenic: 15421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41289, rend_intergenic: 31652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50072, rend_intergenic: 48611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91522, rend_intergenic: 88513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106852, rend_intergenic: 105283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111380, rend_intergenic: 108286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132162, rend_intergenic: 122498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167687, rend_intergenic: 158646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169209, rend_intergenic: 168144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172558, rend_intergenic: 170021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174349, rend_intergenic: 172682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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