-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_606248-811089

-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_26413-T1
Valid prediction for HiQ_model.g17508.t1
Valid prediction for GlimmerHMM_glimmerT_26410-T1
Valid prediction for snap_scaffold_11-snap.167-T1
Valid prediction for snap_scaffold_11-snap.157-T1
Valid prediction for GlimmerHMM_glimmerT_26408-T1
Valid prediction for Augustus_model.g17507.t1
Valid prediction for Augustus_model.g17510.t1
Valid prediction for snap_scaffold_11-snap.134-T1
Valid prediction for snap_scaffold_11-snap.176-T1
Valid prediction for GlimmerHMM_glimmerT_26398-T1
Valid prediction for CodingQuarry_transcript_7950-T1
Valid prediction for snap_scaffold_11-snap.138-T1
Valid prediction for snap_scaffold_11-snap.142-T1
Valid prediction for Augustus_model.g17505.t1
Valid prediction for GlimmerHMM_glimmerT_26381-T1
Valid prediction for snap_scaffold_11-snap.166-T1
Valid prediction for GlimmerHMM_glimmerT_26385-T1
Valid prediction for snap_scaffold_11-snap.170-T1
Valid prediction for snap_scaffold_11-snap.161-T1
Valid prediction for GlimmerHMM_glimmerT_26392-T1
Valid prediction for GlimmerHMM_glimmerT_26399-T1
Valid prediction for snap_scaffold_11-snap.164-T1
Valid prediction for snap_scaffold_11-snap.163-T1
Valid prediction for Augustus_model.g17502.t1
Valid prediction for GlimmerHMM_glimmerT_26393-T1
Valid prediction for GlimmerHMM_glimmerT_26378-T1
Valid prediction for snap_scaffold_11-snap.151-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_11-snap.158-T1
Valid prediction for GlimmerHMM_glimmerT_26404-T1
Valid prediction for snap_scaffold_11-snap.172-T1
Valid prediction for GlimmerHMM_glimmerT_26390-T1
Valid prediction for snap_scaffold_11-snap.150-T1
Valid prediction for GlimmerHMM_glimmerT_26412-T1
Valid prediction for snap_scaffold_11-snap.137-T1
Valid prediction for GlimmerHMM_glimmerT_26384-T1
Valid prediction for snap_scaffold_11-snap.145-T1
Valid prediction for snap_scaffold_11-snap.147-T1
Valid prediction for Augustus_model.g17503.t1
Valid prediction for GlimmerHMM_glimmerT_26394-T1
Couldn't classify 181126, 181239
Sorry, prediction pasa_asmbl_5298.p1 fails validation.
(GCA)	 GC	181126-181239	GT	TGG
(GAG)	 AG	181772-181866	GT	TTG
(CGC)	 AG	181963-182092	GC	GAG
-recovered pasa_asmbl_5298.p1, terminal, 181963, 182092
-recovered pasa_asmbl_5298.p1, internal, 181772, 181866
-recovered pasa_asmbl_5298.p1, internal, 181963, 182092
Valid prediction for snap_scaffold_11-snap.162-T1
Valid prediction for snap_scaffold_11-snap.169-T1
Valid prediction for GlimmerHMM_glimmerT_26402-T1
Valid prediction for GlimmerHMM_glimmerT_26401-T1
Valid prediction for Augustus_model.g17506.t1
Valid prediction for CodingQuarry_transcript_7951-T1
Valid prediction for GlimmerHMM_glimmerT_26406-T1
Valid prediction for Augustus_model.g17500.t1
Valid prediction for snap_scaffold_11-snap.175-T1
Valid prediction for snap_scaffold_11-snap.154-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 GlimmerHMM_glimmerT_26407-T1
Valid prediction for Augustus_model.g17504.t1
Valid prediction for snap_scaffold_11-snap.155-T1
Valid prediction for snap_scaffold_11-snap.159-T1
Valid prediction for snap_scaffold_11-snap.173-T1
Valid prediction for snap_scaffold_11-snap.178-T1
Valid prediction for GlimmerHMM_glimmerT_26403-T1
Valid prediction for GlimmerHMM_glimmerT_26411-T1
Valid prediction for snap_scaffold_11-snap.160-T1
Valid prediction for snap_scaffold_11-snap.141-T1
Valid prediction for snap_scaffold_11-snap.174-T1
Valid prediction for GlimmerHMM_glimmerT_26396-T1
Valid prediction for GlimmerHMM_glimmerT_26379-T1
Valid prediction for snap_scaffold_11-snap.144-T1
Valid prediction for snap_scaffold_11-snap.143-T1
Valid prediction for snap_scaffold_11-snap.153-T1
Valid prediction for GlimmerHMM_glimmerT_26387-T1
Valid prediction for snap_scaffold_11-snap.135-T1
Valid prediction for snap_scaffold_11-snap.171-T1
Valid prediction for snap_scaffold_11-snap.139-T1
Valid prediction for snap_scaffold_11-snap.168-T1
Valid prediction for GlimmerHMM_glimmerT_26405-T1
Valid prediction for GlimmerHMM_glimmerT_26388-T1
Valid prediction for GlimmerHMM_glimmerT_26386-T1
Valid prediction for snap_scaffold_11-snap.149-T1
Valid prediction for snap_scaffold_11-snap.146-T1
Valid prediction for GlimmerHMM_glimmerT_26391-T1
Valid prediction for Augustus_model.g17497.t1
Valid prediction for GlimmerHMM_glimmerT_26395-T1
Valid prediction for GlimmerHMM_glimmerT_26377-T1
Valid prediction for snap_scaffold_11-snap.156-T1
Valid prediction for GlimmerHMM_glimmerT_26397-T1
Valid prediction for Augustus_model.g17498.t1
Valid prediction for GlimmerHMM_glimmerT_26400-T1
Valid prediction for GlimmerHMM_glimmerT_26383-T1
Valid prediction for snap_scaffold_11-snap.140-T1
Valid prediction for Augustus_model.g17499.t1
Valid prediction for snap_scaffold_11-snap.165-T1
Valid prediction for Augustus_model.g17501.t1
Valid prediction for snap_scaffold_11-snap.148-T1
Valid prediction for GlimmerHMM_glimmerT_26380-T1
Valid prediction for snap_scaffold_11-snap.136-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_26382-T1
Valid prediction for snap_scaffold_11-snap.152-T1
Valid prediction for GlimmerHMM_glimmerT_26389-T1
Valid prediction for GlimmerHMM_glimmerT_26409-T1
Valid prediction for HiQ_model.g17509.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13514, rend_intergenic: 8449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25627, rend_intergenic: 14188  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48656, rend_intergenic: 27833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51222, rend_intergenic: 49544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55830, rend_intergenic: 54568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71081, rend_intergenic: 62226  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76371, rend_intergenic: 71111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78692, rend_intergenic: 77112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84685, rend_intergenic: 79172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98000, rend_intergenic: 87972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103787, rend_intergenic: 98093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117607, rend_intergenic: 107049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137638, rend_intergenic: 123825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149201, rend_intergenic: 141185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177912, rend_intergenic: 169227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179749, rend_intergenic: 178125  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185835, rend_intergenic: 181918  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197326, rend_intergenic: 187831  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 204842
-exon list size: 360


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
1.9    
2.2    
2.5    
2.8    
3.0    
3.3    
3.6    
3.9    
4.1    
4.4    
4.7    
5.0    
5.2    
5.5    
5.8    
6.1    
6.4    
6.6    
6.9    
7.2    
7.5    
7.7    
8.0    
8.3    
8.6    
8.8    
9.1    
9.4    
9.7    
9.9    
10.2    
10.5    
10.8    
11.0    
11.3    
11.6    
11.9    
12.2    
12.4    
12.7    
13.0    
13.3    
13.5    
13.8    
14.1    
14.4    
14.6    
14.9    
15.2    
15.5    
15.7    
16.0    
16.3    
16.6    
16.9    
17.1    
17.4    
17.7    
18.0    
18.2    
18.5    
18.8    
19.1    
19.3    
19.6    
19.9    
20.2    
20.4    
20.7    
21.0    
21.3    
21.5    
21.8    
22.1    
22.4    
22.7    
22.9    
23.2    
23.5    
23.8    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.2    
26.5    
26.8    
27.1    
27.3    
27.6    
27.9    
28.2    
28.5    
28.7    
29.0    
29.3    
29.6    
29.8    
30.1    
30.4    
30.7    
30.9    
31.2    
31.5    
31.8    
32.0    
32.3    
32.6    
32.9    
33.1    
33.4    
33.7    
34.0    
34.3    
34.5    
34.8    
35.1    
35.4    
35.6    
35.9    
36.2    
36.5    
36.7    
37.0    
37.3    
37.6    
37.8    
38.1    
38.4    
38.7    
39.0    
39.2    
39.5    
39.8    
40.1    
40.3    
40.6    
40.9    
41.2    
41.4    
41.7    
42.0    
42.3    
42.5    
42.8    
43.1    
43.4    
43.6    
43.9    
44.2    
44.5    
44.8    
45.0    
45.3    
45.6    
45.9    
46.1    
46.4    
46.7    
47.0    
47.2    
47.5    
47.8    
48.1    
48.3    
48.6    
48.9    
49.2    
49.4    
49.7    
50.0    
50.3    
50.6    
50.8    
51.1    
51.4    
51.7    
51.9    
52.2    
52.5    
52.8    
53.0    
53.3    
53.6    
53.9    
54.1    
54.4    
54.7    
55.0    
55.2    
55.5    
55.8    
56.1    
56.4    
56.6    
56.9    
57.2    
57.5    
57.7    
58.0    
58.3    
58.6    
58.8    
59.1    
59.4    
59.7    
59.9    
60.2    
60.5    
60.8    
61.0    
61.3    
61.6    
61.9    
62.2    
62.4    
62.7    
63.0    
63.3    
63.5    
63.8    
64.1    
64.4    
64.6    
64.9    
65.2    
65.5    
65.7    
66.0    
66.3    
66.6    
66.9    
67.1    
67.4    
67.7    
68.0    
68.2    
68.5    
68.8    
69.1    
69.3    
69.6    
69.9    
70.2    
70.4    
70.7    
71.0    
71.3    
71.5    
71.8    
72.1    
72.4    
72.7    
72.9    
73.2    
73.5    
73.8    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.2    
76.5    
76.8    
77.1    
77.3    
77.6    
77.9    
78.2    
78.5    
78.7    
79.0    
79.3    
79.6    
79.8    
80.1    
80.4    
80.7    
80.9    
81.2    
81.5    
81.8    
82.0    
82.3    
82.6    
82.9    
83.1    
83.4    
83.7    
84.0    
84.3    
84.5    
84.8    
85.1    
85.4    
85.6    
85.9    
86.2    
86.5    
86.7    
87.0    
87.3    
87.6    
87.8    
88.1    
88.4    
88.7    
89.0    
89.2    
89.5    
89.8    
90.1    
90.3    
90.6    
90.9    
91.2    
91.4    
91.7    
92.0    
92.3    
92.5    
92.8    
93.1    
93.4    
93.6    
93.9    
94.2    
94.5    
94.8    
95.0    
95.3    
95.6    
95.9    
96.1    
96.4    
96.7    
97.0    
97.2    
97.5    
97.8    
98.1    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 41 predictions from path traversal
Error with prediction: snap lend_intergenic: 13514, rend_intergenic: 8449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25627, rend_intergenic: 14188  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48656, rend_intergenic: 27833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51222, rend_intergenic: 49544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55830, rend_intergenic: 54568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71081, rend_intergenic: 62226  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76371, rend_intergenic: 71111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78692, rend_intergenic: 77112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84685, rend_intergenic: 79172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98000, rend_intergenic: 87972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103787, rend_intergenic: 98093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117607, rend_intergenic: 107049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137638, rend_intergenic: 123825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149201, rend_intergenic: 141185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177912, rend_intergenic: 169227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179749, rend_intergenic: 178125  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185835, rend_intergenic: 181918  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197326, rend_intergenic: 187831  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