-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_25/scaffold_25_6475239-6619050

-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_54309-T1
Couldn't classify 33870, 33940
Sorry, prediction pasa_asmbl_33635.p1 fails validation.
(ATG)	 CC	33091-33331	GT	AGG
(AAA)	 AG	33870-33940	CC	TGC
-recovered pasa_asmbl_33635.p1, initial, 33091, 33331
Valid prediction for GlimmerHMM_glimmerT_54328-T1
Valid prediction for snap_scaffold_25-snap.1373-T1
Valid prediction for snap_scaffold_25-snap.1352-T1
Valid prediction for snap_scaffold_25-snap.1350-T1
Valid prediction for GlimmerHMM_glimmerT_54326-T1
Valid prediction for snap_scaffold_25-snap.1349-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_25-snap.1367-T1
Valid prediction for GlimmerHMM_glimmerT_54320-T1
Valid prediction for snap_scaffold_25-snap.1342-T1
Valid prediction for GlimmerHMM_glimmerT_54305-T1
Valid prediction for snap_scaffold_25-snap.1356-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_54319-T1
Valid prediction for GlimmerHMM_glimmerT_54315-T1
Valid prediction for Augustus_model.g36053.t1
Valid prediction for snap_scaffold_25-snap.1341-T1
Valid prediction for GlimmerHMM_glimmerT_54313-T1
Valid prediction for snap_scaffold_25-snap.1348-T1
Valid prediction for snap_scaffold_25-snap.1346-T1
Valid prediction for Augustus_model.g36052.t1
Valid prediction for GlimmerHMM_glimmerT_54303-T1
Valid prediction for GlimmerHMM_glimmerT_54311-T1
Valid prediction for snap_scaffold_25-snap.1338-T1
Valid prediction for snap_scaffold_25-snap.1374-T1
Valid prediction for snap_scaffold_25-snap.1337-T1
Couldn't classify 6787, 6913
Couldn't classify 8563, 8659
Sorry, prediction pasa_asmbl_33634.p1 fails validation.
(CTT)	 CC	6787-6913	GT	AGG
(GGC)	 AG	7668-7859	GT	CGG
(GCG)	 AG	7976-8166	GT	TGG
(AGC)	 AG	8276-8442	GT	AGG
(GAG)	 AG	8563-8659	GG	TTG
-recovered pasa_asmbl_33634.p1, internal, 7668, 7859
-recovered pasa_asmbl_33634.p1, internal, 7976, 8166
-recovered pasa_asmbl_33634.p1, internal, 8276, 8442
Couldn't classify 43963, 44202
Sorry, prediction pasa_asmbl_33636.p1 fails validation.
(TAC)	 TC	43963-44202	GT	TGG
(GAC)	 AG	45912-46022	GT	TGG
(GCT)	 AG	46976-47044	GT	CTG
(AGC)	 AG	47335-47478	GG	AAG
-recovered pasa_asmbl_33636.p1, terminal, 47335, 47478
-recovered pasa_asmbl_33636.p1, internal, 45912, 46022
-recovered pasa_asmbl_33636.p1, internal, 46976, 47044
Valid prediction for Augustus_model.g36063.t1
Valid prediction for GlimmerHMM_glimmerT_54318-T1
Valid prediction for Augustus_model.g36054.t1
Valid prediction for snap_scaffold_25-snap.1347-T1
Valid prediction for snap_scaffold_25-snap.1372-T1
Valid prediction for GlimmerHMM_glimmerT_54308-T1
Valid prediction for snap_scaffold_25-snap.1344-T1
Valid prediction for snap_scaffold_25-snap.1370-T1
Valid prediction for Augustus_model.g36055.t1
Valid prediction for GlimmerHMM_glimmerT_54307-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_54322-T1
Valid prediction for GlimmerHMM_glimmerT_54323-T1
Valid prediction for snap_scaffold_25-snap.1365-T1
Valid prediction for GlimmerHMM_glimmerT_54314-T1
Valid prediction for GlimmerHMM_glimmerT_54306-T1
Valid prediction for Augustus_model.g36057.t1
Valid prediction for snap_scaffold_25-snap.1340-T1
Valid prediction for snap_scaffold_25-snap.1343-T1
Valid prediction for GlimmerHMM_glimmerT_54327-T1
Valid prediction for snap_scaffold_25-snap.1371-T1
Valid prediction for snap_scaffold_25-snap.1366-T1
Valid prediction for GlimmerHMM_glimmerT_54304-T1
Valid prediction for GlimmerHMM_glimmerT_54325-T1
Valid prediction for snap_scaffold_25-snap.1353-T1
Valid prediction for snap_scaffold_25-snap.1351-T1
Valid prediction for HiQ_model.g36056.t1
Valid prediction for GlimmerHMM_glimmerT_54317-T1
Valid prediction for GlimmerHMM_glimmerT_54316-T1
Valid prediction for GlimmerHMM_glimmerT_54310-T1
Valid prediction for snap_scaffold_25-snap.1363-T1
Valid prediction for GlimmerHMM_glimmerT_54324-T1
Valid prediction for snap_scaffold_25-snap.1360-T1
Valid prediction for Augustus_model.g36062.t1
Valid prediction for snap_scaffold_25-snap.1345-T1
Valid prediction for GlimmerHMM_glimmerT_54312-T1
Valid prediction for snap_scaffold_25-snap.1358-T1
Valid prediction for Augustus_model.g36059.t1
Valid prediction for pasa_asmbl_34366.p1
Valid prediction for CodingQuarry_transcript_38766-T1
Valid prediction for Augustus_model.g36061.t1
Valid prediction for snap_scaffold_25-snap.1368-T1
Valid prediction for snap_scaffold_25-snap.1369-T1
Valid prediction for Augustus_model.g36058.t1
Valid prediction for snap_scaffold_25-snap.1359-T1
Valid prediction for GlimmerHMM_glimmerT_54321-T1
Valid prediction for snap_scaffold_25-snap.1339-T1
Valid prediction for snap_scaffold_25-snap.1361-T1
Valid prediction for snap_scaffold_25-snap.1364-T1
Valid prediction for snap_scaffold_25-snap.1354-T1
Valid prediction for snap_scaffold_25-snap.1355-T1
Valid prediction for snap_scaffold_25-snap.1357-T1
Valid prediction for snap_scaffold_25-snap.1362-T1
Valid prediction for Augustus_model.g36060.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9683, rend_intergenic: 6736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24146, rend_intergenic: 10914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33384, rend_intergenic: 29129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37851, rend_intergenic: 35718  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40055, rend_intergenic: 38098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84808, rend_intergenic: 80982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123154, rend_intergenic: 118689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127249, rend_intergenic: 123160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 143812
-exon list size: 263


building trellis

0.4    
0.8    
1.1    
1.5    
1.9    
2.3    
2.6    
3.0    
3.4    
3.8    
4.2    
4.5    
4.9    
5.3    
5.7    
6.0    
6.4    
6.8    
7.2    
7.5    
7.9    
8.3    
8.7    
9.1    
9.4    
9.8    
10.2    
10.6    
10.9    
11.3    
11.7    
12.1    
12.5    
12.8    
13.2    
13.6    
14.0    
14.3    
14.7    
15.1    
15.5    
15.8    
16.2    
16.6    
17.0    
17.4    
17.7    
18.1    
18.5    
18.9    
19.2    
19.6    
20.0    
20.4    
20.8    
21.1    
21.5    
21.9    
22.3    
22.6    
23.0    
23.4    
23.8    
24.2    
24.5    
24.9    
25.3    
25.7    
26.0    
26.4    
26.8    
27.2    
27.5    
27.9    
28.3    
28.7    
29.1    
29.4    
29.8    
30.2    
30.6    
30.9    
31.3    
31.7    
32.1    
32.5    
32.8    
33.2    
33.6    
34.0    
34.3    
34.7    
35.1    
35.5    
35.8    
36.2    
36.6    
37.0    
37.4    
37.7    
38.1    
38.5    
38.9    
39.2    
39.6    
40.0    
40.4    
40.8    
41.1    
41.5    
41.9    
42.3    
42.6    
43.0    
43.4    
43.8    
44.2    
44.5    
44.9    
45.3    
45.7    
46.0    
46.4    
46.8    
47.2    
47.5    
47.9    
48.3    
48.7    
49.1    
49.4    
49.8    
50.2    
50.6    
50.9    
51.3    
51.7    
52.1    
52.5    
52.8    
53.2    
53.6    
54.0    
54.3    
54.7    
55.1    
55.5    
55.8    
56.2    
56.6    
57.0    
57.4    
57.7    
58.1    
58.5    
58.9    
59.2    
59.6    
60.0    
60.4    
60.8    
61.1    
61.5    
61.9    
62.3    
62.6    
63.0    
63.4    
63.8    
64.2    
64.5    
64.9    
65.3    
65.7    
66.0    
66.4    
66.8    
67.2    
67.5    
67.9    
68.3    
68.7    
69.1    
69.4    
69.8    
70.2    
70.6    
70.9    
71.3    
71.7    
72.1    
72.5    
72.8    
73.2    
73.6    
74.0    
74.3    
74.7    
75.1    
75.5    
75.8    
76.2    
76.6    
77.0    
77.4    
77.7    
78.1    
78.5    
78.9    
79.2    
79.6    
80.0    
80.4    
80.8    
81.1    
81.5    
81.9    
82.3    
82.6    
83.0    
83.4    
83.8    
84.2    
84.5    
84.9    
85.3    
85.7    
86.0    
86.4    
86.8    
87.2    
87.5    
87.9    
88.3    
88.7    
89.1    
89.4    
89.8    
90.2    
90.6    
90.9    
91.3    
91.7    
92.1    
92.5    
92.8    
93.2    
93.6    
94.0    
94.3    
94.7    
95.1    
95.5    
95.8    
96.2    
96.6    
97.0    
97.4    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 9683, rend_intergenic: 6736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24146, rend_intergenic: 10914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33384, rend_intergenic: 29129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37851, rend_intergenic: 35718  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40055, rend_intergenic: 38098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84808, rend_intergenic: 80982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123154, rend_intergenic: 118689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127249, rend_intergenic: 123160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support