-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_7745121-7883912

-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_40607-T1
Valid prediction for GlimmerHMM_glimmerT_40590-T1
Couldn't classify 2603, 3007
Sorry, prediction pasa_asmbl_18920.p1 fails validation.
(CCT)	 AA	2603-3007	AC	GGA
Valid prediction for Augustus_model.g27071.t1
Valid prediction for snap_scaffold_17-snap.1525-T1
Valid prediction for snap_scaffold_17-snap.1533-T1
Valid prediction for Augustus_model.g27064.t1
Valid prediction for snap_scaffold_17-snap.1536-T1
Valid prediction for Augustus_model.g27063.t1
Valid prediction for snap_scaffold_17-snap.1524-T1
Valid prediction for snap_scaffold_17-snap.1534-T1
Valid prediction for GlimmerHMM_glimmerT_40589-T1
Valid prediction for GlimmerHMM_glimmerT_40609-T1
Valid prediction for GlimmerHMM_glimmerT_40598-T1
Valid prediction for snap_scaffold_17-snap.1541-T1
Valid prediction for GlimmerHMM_glimmerT_40585-T1
Couldn't classify 49180, 49278
Couldn't classify 51028, 51147
Sorry, prediction pasa_asmbl_19527.p1 fails validation.
(TCC)	 CA	49180-49278	GT	AGG
(GCG)	 AG	50493-50600	GT	AGG
(ATC)	 AG	51028-51147	GT	AGG
-recovered pasa_asmbl_19527.p1, internal, 50493, 50600
-recovered pasa_asmbl_19527.p1, internal, 51028, 51147
Valid prediction for snap_scaffold_17-snap.1545-T1
Valid prediction for GlimmerHMM_glimmerT_40596-T1
Valid prediction for GlimmerHMM_glimmerT_40593-T1
Valid prediction for Augustus_model.g27060.t1
Valid prediction for GlimmerHMM_glimmerT_40595-T1
Valid prediction for snap_scaffold_17-snap.1542-T1
Valid prediction for snap_scaffold_17-snap.1529-T1
Valid prediction for snap_scaffold_17-snap.1549-T1
Valid prediction for snap_scaffold_17-snap.1521-T1
Valid prediction for snap_scaffold_17-snap.1528-T1
Valid prediction for Augustus_model.g27068.t1
Valid prediction for GlimmerHMM_glimmerT_40591-T1
Valid prediction for Augustus_model.g27058.t1
Valid prediction for GlimmerHMM_glimmerT_40601-T1
Valid prediction for Augustus_model.g27057.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_40602-T1
Valid prediction for Augustus_model.g27067.t1
Valid prediction for GlimmerHMM_glimmerT_40604-T1
Valid prediction for snap_scaffold_17-snap.1543-T1
Valid prediction for GlimmerHMM_glimmerT_40608-T1
Valid prediction for snap_scaffold_17-snap.1544-T1
Valid prediction for Augustus_model.g27065.t1
Valid prediction for snap_scaffold_17-snap.1526-T1
Valid prediction for snap_scaffold_17-snap.1531-T1
Valid prediction for snap_scaffold_17-snap.1540-T1
Valid prediction for Augustus_model.g27059.t1
Couldn't classify 29348, 29425
Sorry, prediction pasa_asmbl_18060.p1 fails validation.
(ATC)	 CC	29348-29425	GT	AGG
(TTA)	 AG	29568-29684	GT	AGG
(CCC)	 AG	29799-29882	GT	TGG
(ATC)	 AG	29998-30078	GT	AGG
(GTG)	 AG	30174-30325	GT	AGG
(GTC)	 AG	30524-30656	GT	AGG
(TAT)	 AG	30912-31000	GT	GAG
(TGG)	 AG	31114-31208	GT	TGG
(GTG)	 AG	31361-31423	GT	AGG
(ATG)	 AG	31546-31589	GT	TGG
(GTG)	 AG	31681-31777	GT	GCG
(GAA)	 AG	31867-31922	GT	AGG
(GTC)	 AG	32101-32197	GT	TGG
(ACC)	 AG	32329-32473	GT	CGG
(GGA)	 AG	32845-32935	GA	AGG
-recovered pasa_asmbl_18060.p1, initial, 31546, 31589
-recovered pasa_asmbl_18060.p1, terminal, 32845, 32935
-recovered pasa_asmbl_18060.p1, internal, 29568, 29684
-recovered pasa_asmbl_18060.p1, internal, 29799, 29882
-recovered pasa_asmbl_18060.p1, internal, 29998, 30078
-recovered pasa_asmbl_18060.p1, internal, 30174, 30325
-recovered pasa_asmbl_18060.p1, internal, 30524, 30656
-recovered pasa_asmbl_18060.p1, internal, 30912, 31000
-recovered pasa_asmbl_18060.p1, internal, 31114, 31208
-recovered pasa_asmbl_18060.p1, internal, 31361, 31423
-recovered pasa_asmbl_18060.p1, internal, 31546, 31589
-recovered pasa_asmbl_18060.p1, internal, 31681, 31777
-recovered pasa_asmbl_18060.p1, internal, 31867, 31922
-recovered pasa_asmbl_18060.p1, internal, 32101, 32197
-recovered pasa_asmbl_18060.p1, internal, 32329, 32473
Valid prediction for HiQ_model.g27070.t1
Valid prediction for snap_scaffold_17-snap.1538-T1
Valid prediction for snap_scaffold_17-snap.1527-T1
Valid prediction for GlimmerHMM_glimmerT_40599-T1
Valid prediction for Augustus_model.g27062.t1
Valid prediction for snap_scaffold_17-snap.1532-T1
Valid prediction for Augustus_model.g27061.t1
Valid prediction for snap_scaffold_17-snap.1522-T1
Couldn't classify 29032, 29168
Sorry, prediction pasa_asmbl_18062.p1 fails validation.
(ATG)	 AT	28770-28935	GT	TGG
(GGG)	 AG	29032-29168	AG	AGA
-recovered pasa_asmbl_18062.p1, initial, 28770, 28935
Valid prediction for snap_scaffold_17-snap.1535-T1
Valid prediction for snap_scaffold_17-snap.1530-T1
Valid prediction for Augustus_model.g27069.t1
Valid prediction for GlimmerHMM_glimmerT_40592-T1
Valid prediction for GlimmerHMM_glimmerT_40606-T1
Couldn't classify 52782, 52940
Sorry, prediction pasa_asmbl_18059.p1 fails validation.
(ATG)	 TT	51291-51434	GT	AGG
(CTC)	 AG	52782-52940	GT	AGG
-recovered pasa_asmbl_18059.p1, initial, 51291, 51434
-recovered pasa_asmbl_18059.p1, internal, 52782, 52940
Valid prediction for snap_scaffold_17-snap.1547-T1
Valid prediction for GlimmerHMM_glimmerT_40610-T1
Valid prediction for GlimmerHMM_glimmerT_40587-T1
Valid prediction for GlimmerHMM_glimmerT_40597-T1
Valid prediction for Augustus_model.g27066.t1
Valid prediction for snap_scaffold_17-snap.1548-T1
Valid prediction for snap_scaffold_17-snap.1546-T1
Valid prediction for GlimmerHMM_glimmerT_40586-T1
Valid prediction for GlimmerHMM_glimmerT_40594-T1
Valid prediction for snap_scaffold_17-snap.1539-T1
Valid prediction for GlimmerHMM_glimmerT_40603-T1
Valid prediction for GlimmerHMM_glimmerT_40600-T1
Valid prediction for snap_scaffold_17-snap.1523-T1
Valid prediction for GlimmerHMM_glimmerT_40588-T1
Valid prediction for GlimmerHMM_glimmerT_40605-T1
Valid prediction for snap_scaffold_17-snap.1537-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9469, rend_intergenic: 4732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15103, rend_intergenic: 14925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22891, rend_intergenic: 19525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39298, rend_intergenic: 24479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65046, rend_intergenic: 41396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79461, rend_intergenic: 70927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80766, rend_intergenic: 80493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84773, rend_intergenic: 81008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124648, rend_intergenic: 113937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138304, rend_intergenic: 133722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 138792
-exon list size: 273


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.5    
2.9    
3.3    
3.6    
4.0    
4.4    
4.7    
5.1    
5.5    
5.8    
6.2    
6.5    
6.9    
7.3    
7.6    
8.0    
8.4    
8.7    
9.1    
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9.8    
10.2    
10.5    
10.9    
11.3    
11.6    
12.0    
12.4    
12.7    
13.1    
13.5    
13.8    
14.2    
14.5    
14.9    
15.3    
15.6    
16.0    
16.4    
16.7    
17.1    
17.5    
17.8    
18.2    
18.5    
18.9    
19.3    
19.6    
20.0    
20.4    
20.7    
21.1    
21.5    
21.8    
22.2    
22.5    
22.9    
23.3    
23.6    
24.0    
24.4    
24.7    
25.1    
25.5    
25.8    
26.2    
26.5    
26.9    
27.3    
27.6    
28.0    
28.4    
28.7    
29.1    
29.5    
29.8    
30.2    
30.5    
30.9    
31.3    
31.6    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.5    
34.9    
35.3    
35.6    
36.0    
36.4    
36.7    
37.1    
37.5    
37.8    
38.2    
38.5    
38.9    
39.3    
39.6    
40.0    
40.4    
40.7    
41.1    
41.5    
41.8    
42.2    
42.5    
42.9    
43.3    
43.6    
44.0    
44.4    
44.7    
45.1    
45.5    
45.8    
46.2    
46.5    
46.9    
47.3    
47.6    
48.0    
48.4    
48.7    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.3    
51.6    
52.0    
52.4    
52.7    
53.1    
53.5    
53.8    
54.2    
54.5    
54.9    
55.3    
55.6    
56.0    
56.4    
56.7    
57.1    
57.5    
57.8    
58.2    
58.5    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.5    
61.8    
62.2    
62.5    
62.9    
63.3    
63.6    
64.0    
64.4    
64.7    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.4    
68.7    
69.1    
69.5    
69.8    
70.2    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.7    
73.1    
73.5    
73.8    
74.2    
74.5    
74.9    
75.3    
75.6    
76.0    
76.4    
76.7    
77.1    
77.5    
77.8    
78.2    
78.5    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.5    
81.8    
82.2    
82.5    
82.9    
83.3    
83.6    
84.0    
84.4    
84.7    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.3    
87.6    
88.0    
88.4    
88.7    
89.1    
89.5    
89.8    
90.2    
90.5    
90.9    
91.3    
91.6    
92.0    
92.4    
92.7    
93.1    
93.5    
93.8    
94.2    
94.5    
94.9    
95.3    
95.6    
96.0    
96.4    
96.7    
97.1    
97.5    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 9469, rend_intergenic: 4732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15103, rend_intergenic: 14925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22891, rend_intergenic: 19525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39298, rend_intergenic: 24479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65046, rend_intergenic: 41396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79461, rend_intergenic: 70927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80766, rend_intergenic: 80493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84773, rend_intergenic: 81008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124648, rend_intergenic: 113937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138304, rend_intergenic: 133722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 127225 - 138792
-exon list size: 14


building trellis

6.2    
12.5    
18.8    
25.0    
31.2    
37.5    
43.8    
50.0    
56.2    
62.5    
68.8    
75.0    
81.2    
87.5    
93.8    
-found 2 predictions from path traversal
GOT 5prime partial gene.

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