-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_1486986-1732981

-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_10-snap.350-T1
Valid prediction for snap_scaffold_10-snap.346-T1
Valid prediction for snap_scaffold_10-snap.341-T1
Valid prediction for GlimmerHMM_glimmerT_24138-T1
Valid prediction for snap_scaffold_10-snap.347-T1
Valid prediction for snap_scaffold_10-snap.320-T1
Valid prediction for snap_scaffold_10-snap.323-T1
Valid prediction for GlimmerHMM_glimmerT_24151-T1
Valid prediction for Augustus_model.g16088.t1
Valid prediction for snap_scaffold_10-snap.352-T1
Valid prediction for GlimmerHMM_glimmerT_24141-T1
Valid prediction for GlimmerHMM_glimmerT_24127-T1
Valid prediction for snap_scaffold_10-snap.362-T1
Valid prediction for snap_scaffold_10-snap.363-T1
Valid prediction for snap_scaffold_10-snap.337-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_24143-T1
Valid prediction for snap_scaffold_10-snap.338-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_24146-T1
Valid prediction for CodingQuarry_transcript_5287-T1
Valid prediction for snap_scaffold_10-snap.327-T1
Valid prediction for Augustus_model.g16096.t1
Valid prediction for Augustus_model.g16086.t1
Valid prediction for Augustus_model.g16097.t1
Valid prediction for snap_scaffold_10-snap.326-T1
Valid prediction for snap_scaffold_10-snap.332-T1
Valid prediction for GlimmerHMM_glimmerT_24149-T1
Valid prediction for snap_scaffold_10-snap.330-T1
Valid prediction for Augustus_model.g16085.t1
Valid prediction for snap_scaffold_10-snap.331-T1
Valid prediction for snap_scaffold_10-snap.361-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_24144-T1
Valid prediction for snap_scaffold_10-snap.359-T1
Valid prediction for GlimmerHMM_glimmerT_24137-T1
Valid prediction for snap_scaffold_10-snap.339-T1
Valid prediction for GlimmerHMM_glimmerT_24128-T1
Valid prediction for HiQ_model.g16094.t1
Valid prediction for GlimmerHMM_glimmerT_24139-T1
Valid prediction for pasa_asmbl_2949.p1
Valid prediction for snap_scaffold_10-snap.344-T1
Valid prediction for CodingQuarry_transcript_5283-T1
Valid prediction for snap_scaffold_10-snap.333-T1
Valid prediction for snap_scaffold_10-snap.349-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_10-snap.329-T1
Valid prediction for CodingQuarry_transcript_5288-T1
Valid prediction for GlimmerHMM_glimmerT_24136-T1
Valid prediction for GlimmerHMM_glimmerT_24145-T1
Valid prediction for Augustus_model.g16084.t1
Valid prediction for HiQ_model.g16095.t1
Valid prediction for snap_scaffold_10-snap.334-T1
Valid prediction for GlimmerHMM_glimmerT_24126-T1
Valid prediction for GlimmerHMM_glimmerT_24150-T1
Valid prediction for Augustus_model.g16092.t1
Valid prediction for snap_scaffold_10-snap.319-T1
Couldn't classify 957, 1060
Couldn't classify 8134, 8241
Sorry, prediction pasa_asmbl_4079.p1 fails validation.
(TCT)	 TT	957-1060	GT	AGG
(GGC)	 AG	4055-4129	GT	GGG
(CAC)	 AG	4395-4536	GT	AGG
(ACC)	 AG	5793-5945	GT	AGG
(GCA)	 AG	6191-6295	GT	AGG
(AAA)	 AG	8134-8241	AC	ACA
-recovered pasa_asmbl_4079.p1, internal, 4055, 4129
-recovered pasa_asmbl_4079.p1, internal, 4395, 4536
-recovered pasa_asmbl_4079.p1, internal, 5793, 5945
-recovered pasa_asmbl_4079.p1, internal, 6191, 6295
Valid prediction for Augustus_model.g16090.t1
Valid prediction for GlimmerHMM_glimmerT_24153-T1
Valid prediction for snap_scaffold_10-snap.322-T1
Valid prediction for snap_scaffold_10-snap.321-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_10-snap.336-T1
Valid prediction for snap_scaffold_10-snap.351-T1
Valid prediction for CodingQuarry_transcript_5286-T1
Valid prediction for snap_scaffold_10-snap.318-T1
Valid prediction for snap_scaffold_10-snap.357-T1
Valid prediction for snap_scaffold_10-snap.340-T1
Valid prediction for Augustus_model.g16087.t1
Valid prediction for snap_scaffold_10-snap.348-T1
Valid prediction for GlimmerHMM_glimmerT_24129-T1
Valid prediction for snap_scaffold_10-snap.354-T1
Valid prediction for GlimmerHMM_glimmerT_24130-T1
Couldn't classify 102416, 102544
Sorry, prediction pasa_asmbl_4070.p1 fails validation.
(TCC)	 CT	102416-102544	GT	AGG
(ATG)	 AG	103474-103542	GC	AGG
(GGC)	 AG	103778-103891	GT	AGG
(GTG)	 AG	104012-104213	GT	GGG
(CCG)	 AG	104819-104872	GT	AGG
(ATC)	 AG	105822-105868	AG	AAA
-recovered pasa_asmbl_4070.p1, initial, 103474, 103542
-recovered pasa_asmbl_4070.p1, terminal, 105822, 105868
-recovered pasa_asmbl_4070.p1, internal, 103474, 103542
-recovered pasa_asmbl_4070.p1, internal, 103778, 103891
-recovered pasa_asmbl_4070.p1, internal, 104012, 104213
-recovered pasa_asmbl_4070.p1, internal, 104819, 104872
Valid prediction for Augustus_model.g16099.t1
Valid prediction for Augustus_model.g16098.t1
Valid prediction for snap_scaffold_10-snap.324-T1
Valid prediction for GlimmerHMM_glimmerT_24152-T1
Valid prediction for snap_scaffold_10-snap.365-T1
Valid prediction for Augustus_model.g16089.t1
Valid prediction for GlimmerHMM_glimmerT_24135-T1
Valid prediction for snap_scaffold_10-snap.360-T1
Valid prediction for GlimmerHMM_glimmerT_24142-T1
Valid prediction for snap_scaffold_10-snap.364-T1
Valid prediction for GlimmerHMM_glimmerT_24148-T1
Valid prediction for snap_scaffold_10-snap.342-T1
Valid prediction for snap_scaffold_10-snap.353-T1
Valid prediction for CodingQuarry_transcript_5285-T1
Valid prediction for GlimmerHMM_glimmerT_24132-T1
Valid prediction for GlimmerHMM_glimmerT_24140-T1
Valid prediction for snap_scaffold_10-snap.325-T1
Valid prediction for snap_scaffold_10-snap.358-T1
Valid prediction for snap_scaffold_10-snap.335-T1
Valid prediction for snap_scaffold_10-snap.355-T1
Valid prediction for GlimmerHMM_glimmerT_24134-T1
Valid prediction for snap_scaffold_10-snap.328-T1
Valid prediction for Augustus_model.g16091.t1
Valid prediction for GlimmerHMM_glimmerT_24131-T1
Valid prediction for GlimmerHMM_glimmerT_24133-T1
Valid prediction for snap_scaffold_10-snap.345-T1
Valid prediction for GlimmerHMM_glimmerT_24147-T1
Valid prediction for pasa_asmbl_4063.p1
Valid prediction for snap_scaffold_10-snap.343-T1
Valid prediction for GlimmerHMM_glimmerT_24154-T1
Valid prediction for snap_scaffold_10-snap.356-T1
Couldn't classify 21044, 21068
Couldn't classify 22654, 22918
Sorry, prediction pasa_asmbl_4078.p1 fails validation.
(AGT)	 AG	21044-21068	GT	CAG
(GTG)	 AG	22458-22500	GT	GAG
(CAG)	 AG	22654-22918	GT	GTG
-recovered pasa_asmbl_4078.p1, internal, 21044, 21068
-recovered pasa_asmbl_4078.p1, internal, 22458, 22500
-recovered pasa_asmbl_4078.p1, internal, 22654, 22918
Valid prediction for CodingQuarry_transcript_5284-T1
Valid prediction for GlimmerHMM_glimmerT_24155-T1
Valid prediction for CodingQuarry_transcript_5289-T1
Valid prediction for Augustus_model.g16093.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 35394, rend_intergenic: 32102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50446, rend_intergenic: 41478  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58554, rend_intergenic: 50621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69206, rend_intergenic: 67644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109383, rend_intergenic: 97384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114975, rend_intergenic: 109948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162681, rend_intergenic: 155876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180253, rend_intergenic: 174363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218258, rend_intergenic: 214382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 233985, rend_intergenic: 222922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 240240, rend_intergenic: 239302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 245996
-exon list size: 438


building trellis

0.2    
0.5    
0.7    
0.9    
1.1    
1.4    
1.6    
1.8    
2.0    
2.3    
2.5    
2.7    
3.0    
3.2    
3.4    
3.6    
3.9    
4.1    
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4.5    
4.8    
5.0    
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5.9    
6.1    
6.4    
6.6    
6.8    
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8.0    
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8.4    
8.6    
8.9    
9.1    
9.3    
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10.0    
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10.9    
11.1    
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11.8    
12.0    
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12.5    
12.7    
13.0    
13.2    
13.4    
13.6    
13.9    
14.1    
14.3    
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14.8    
15.0    
15.2    
15.5    
15.7    
15.9    
16.1    
16.4    
16.6    
16.8    
17.0    
17.3    
17.5    
17.7    
18.0    
18.2    
18.4    
18.6    
18.9    
19.1    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
20.9    
21.1    
21.4    
21.6    
21.8    
22.0    
22.3    
22.5    
22.7    
23.0    
23.2    
23.4    
23.6    
23.9    
24.1    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
25.9    
26.1    
26.4    
26.6    
26.8    
27.0    
27.3    
27.5    
27.7    
28.0    
28.2    
28.4    
28.6    
28.9    
29.1    
29.3    
29.5    
29.8    
30.0    
30.2    
30.5    
30.7    
30.9    
31.1    
31.4    
31.6    
31.8    
32.0    
32.3    
32.5    
32.7    
33.0    
33.2    
33.4    
33.6    
33.9    
34.1    
34.3    
34.5    
34.8    
35.0    
35.2    
35.5    
35.7    
35.9    
36.1    
36.4    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
38.0    
38.2    
38.4    
38.6    
38.9    
39.1    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
40.9    
41.1    
41.4    
41.6    
41.8    
42.0    
42.3    
42.5    
42.7    
43.0    
43.2    
43.4    
43.6    
43.9    
44.1    
44.3    
44.5    
44.8    
45.0    
45.2    
45.5    
45.7    
45.9    
46.1    
46.4    
46.6    
46.8    
47.0    
47.3    
47.5    
47.7    
48.0    
48.2    
48.4    
48.6    
48.9    
49.1    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
50.9    
51.1    
51.4    
51.6    
51.8    
52.0    
52.3    
52.5    
52.7    
53.0    
53.2    
53.4    
53.6    
53.9    
54.1    
54.3    
54.5    
54.8    
55.0    
55.2    
55.5    
55.7    
55.9    
56.1    
56.4    
56.6    
56.8    
57.0    
57.3    
57.5    
57.7    
58.0    
58.2    
58.4    
58.6    
58.9    
59.1    
59.3    
59.5    
59.8    
60.0    
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60.5    
60.7    
60.9    
61.1    
61.4    
61.6    
61.8    
62.0    
62.3    
62.5    
62.7    
63.0    
63.2    
63.4    
63.6    
63.9    
64.1    
64.3    
64.5    
64.8    
65.0    
65.2    
65.5    
65.7    
65.9    
66.1    
66.4    
66.6    
66.8    
67.0    
67.3    
67.5    
67.7    
68.0    
68.2    
68.4    
68.6    
68.9    
69.1    
69.3    
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69.8    
70.0    
70.2    
70.5    
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70.9    
71.1    
71.4    
71.6    
71.8    
72.0    
72.3    
72.5    
72.7    
73.0    
73.2    
73.4    
73.6    
73.9    
74.1    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
75.9    
76.1    
76.4    
76.6    
76.8    
77.0    
77.3    
77.5    
77.7    
78.0    
78.2    
78.4    
78.6    
78.9    
79.1    
79.3    
79.5    
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80.0    
80.2    
80.5    
80.7    
80.9    
81.1    
81.4    
81.6    
81.8    
82.0    
82.3    
82.5    
82.7    
83.0    
83.2    
83.4    
83.6    
83.9    
84.1    
84.3    
84.5    
84.8    
85.0    
85.2    
85.5    
85.7    
85.9    
86.1    
86.4    
86.6    
86.8    
87.0    
87.3    
87.5    
87.7    
88.0    
88.2    
88.4    
88.6    
88.9    
89.1    
89.3    
89.5    
89.8    
90.0    
90.2    
90.5    
90.7    
90.9    
91.1    
91.4    
91.6    
91.8    
92.0    
92.3    
92.5    
92.7    
93.0    
93.2    
93.4    
93.6    
93.9    
94.1    
94.3    
94.5    
94.8    
95.0    
95.2    
95.5    
95.7    
95.9    
96.1    
96.4    
96.6    
96.8    
97.0    
97.3    
97.5    
97.7    
98.0    
98.2    
98.4    
98.6    
98.9    
99.1    
99.3    
99.5    
99.8    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 35394, rend_intergenic: 32102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50446, rend_intergenic: 41478  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58554, rend_intergenic: 50621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69206, rend_intergenic: 67644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109383, rend_intergenic: 97384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114975, rend_intergenic: 109948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162681, rend_intergenic: 155876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180253, rend_intergenic: 174363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218258, rend_intergenic: 214382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 233985, rend_intergenic: 222922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 240240, rend_intergenic: 239302  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