-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_12/scaffold_12_15723113-15914487

-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_31374-T1
Valid prediction for GeneMark_model.54184_t
Valid prediction for GlimmerHMM_glimmerT_31381-T1
Valid prediction for snap_scaffold_12-snap.3045-T1
Valid prediction for Augustus_model.g20919.t1
Valid prediction for GeneMark_model.54170_t
Valid prediction for GeneMark_model.54192_t
Valid prediction for CodingQuarry_transcript_10481-T1
Valid prediction for pasa_asmbl_9101.p1
Valid prediction for GeneMark_model.54177_t
Valid prediction for GeneMark_model.54167_t
Valid prediction for pasa_asmbl_9102.p1
Valid prediction for GeneMark_model.54171_t
Valid prediction for GeneMark_model.54187_t
Valid prediction for GlimmerHMM_glimmerT_31394-T1
Valid prediction for snap_scaffold_12-snap.3072-T1
Valid prediction for snap_scaffold_12-snap.3074-T1
Valid prediction for GlimmerHMM_glimmerT_31393-T1
Valid prediction for Augustus_model.g20923.t1
Valid prediction for GeneMark_model.54183_t
Valid prediction for Augustus_model.g20918.t1
Valid prediction for Augustus_model.g20932.t1
Valid prediction for snap_scaffold_12-snap.3048-T1
Valid prediction for GlimmerHMM_glimmerT_31387-T1
Valid prediction for Augustus_model.g20920.t1
Valid prediction for GeneMark_model.54172_t
Valid prediction for snap_scaffold_12-snap.3053-T1
Valid prediction for snap_scaffold_12-snap.3044-T1
Valid prediction for GeneMark_model.54190_t
Valid prediction for snap_scaffold_12-snap.3047-T1
Valid prediction for GlimmerHMM_glimmerT_31397-T1
Valid prediction for GlimmerHMM_glimmerT_31379-T1
Valid prediction for GeneMark_model.54181_t
Valid prediction for snap_scaffold_12-snap.3058-T1
Valid prediction for snap_scaffold_12-snap.3052-T1
Valid prediction for snap_scaffold_12-snap.3078-T1
Valid prediction for GeneMark_model.54168_t
Valid prediction for GlimmerHMM_glimmerT_31377-T1
Valid prediction for GlimmerHMM_glimmerT_31390-T1
Valid prediction for GlimmerHMM_glimmerT_31389-T1
Valid prediction for snap_scaffold_12-snap.3063-T1
Valid prediction for GeneMark_model.54194_t
Valid prediction for GlimmerHMM_glimmerT_31382-T1
Valid prediction for GeneMark_model.54186_t
Valid prediction for CodingQuarry_transcript_10480-T1
Valid prediction for snap_scaffold_12-snap.3060-T1
Valid prediction for snap_scaffold_12-snap.3046-T1
Valid prediction for GeneMark_model.54196_t
Valid prediction for GlimmerHMM_glimmerT_31375-T1
Valid prediction for GlimmerHMM_glimmerT_31392-T1
Valid prediction for snap_scaffold_12-snap.3061-T1
Valid prediction for Augustus_model.g20922.t1
Valid prediction for HiQ_model.g20924.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 GeneMark_model.54175_t
Valid prediction for GlimmerHMM_glimmerT_31383-T1
Valid prediction for HiQ_model.g20925.t1
Valid prediction for GeneMark_model.54182_t
Couldn't classify 162075, 162676
Sorry, prediction pasa_asmbl_8240.p1 fails validation.
(TTA)	 GT	162075-162676	GT	AGG
(CTG)	 AG	162794-162944	CC	GAC
-recovered pasa_asmbl_8240.p1, terminal, 162794, 162944
Valid prediction for snap_scaffold_12-snap.3064-T1
Valid prediction for snap_scaffold_12-snap.3077-T1
Valid prediction for GlimmerHMM_glimmerT_31396-T1
Valid prediction for GeneMark_model.54174_t
Valid prediction for GeneMark_model.54191_t
Valid prediction for GlimmerHMM_glimmerT_31391-T1
Valid prediction for GeneMark_model.54176_t
Valid prediction for snap_scaffold_12-snap.3057-T1
Valid prediction for GlimmerHMM_glimmerT_31380-T1
Valid prediction for GlimmerHMM_glimmerT_31385-T1
Valid prediction for GlimmerHMM_glimmerT_31376-T1
Valid prediction for Augustus_model.g20926.t1
Valid prediction for GlimmerHMM_glimmerT_31384-T1
Valid prediction for Augustus_model.g20921.t1
Valid prediction for snap_scaffold_12-snap.3050-T1
Valid prediction for pasa_asmbl_8241.p1
Valid prediction for GlimmerHMM_glimmerT_31388-T1
Valid prediction for snap_scaffold_12-snap.3065-T1
Valid prediction for snap_scaffold_12-snap.3055-T1
Valid prediction for Augustus_model.g20930.t1
Valid prediction for GeneMark_model.54188_t
Valid prediction for snap_scaffold_12-snap.3049-T1
Valid prediction for snap_scaffold_12-snap.3051-T1
Valid prediction for pasa_asmbl_8239.p1
Valid prediction for GeneMark_model.54169_t
Valid prediction for snap_scaffold_12-snap.3066-T1
Valid prediction for snap_scaffold_12-snap.3067-T1
Valid prediction for snap_scaffold_12-snap.3069-T1
Valid prediction for GeneMark_model.54180_t
Valid prediction for GeneMark_model.54185_t
Valid prediction for GlimmerHMM_glimmerT_31386-T1
Couldn't classify 160413, 160544
Couldn't classify 161034, 161300
Sorry, prediction pasa_asmbl_8288.p1 fails validation.
(AAT)	 AC	160413-160544	GT	AGG
(GTC)	 AG	161034-161300	GA	AGG
Valid prediction for Augustus_model.g20928.t1
Valid prediction for Augustus_model.g20917.t1
Valid prediction for CodingQuarry_transcript_10482-T1
Valid prediction for GeneMark_model.54189_t
Valid prediction for Augustus_model.g20929.t1
Valid prediction for snap_scaffold_12-snap.3062-T1
Valid prediction for GeneMark_model.54195_t
Valid prediction for snap_scaffold_12-snap.3076-T1
Valid prediction for snap_scaffold_12-snap.3059-T1
Valid prediction for GlimmerHMM_glimmerT_31395-T1
Valid prediction for snap_scaffold_12-snap.3075-T1
Valid prediction for snap_scaffold_12-snap.3054-T1
Valid prediction for snap_scaffold_12-snap.3056-T1
Valid prediction for Augustus_model.g20931.t1
Valid prediction for GeneMark_model.54193_t
Valid prediction for GeneMark_model.54166_t
Valid prediction for snap_scaffold_12-snap.3070-T1
Valid prediction for Augustus_model.g20927.t1
Valid prediction for GeneMark_model.54179_t
Valid prediction for GlimmerHMM_glimmerT_31378-T1
Valid prediction for GlimmerHMM_glimmerT_31373-T1
Valid prediction for snap_scaffold_12-snap.3073-T1
Valid prediction for GeneMark_model.54173_t
Valid prediction for snap_scaffold_12-snap.3068-T1
Valid prediction for GeneMark_model.54197_t
Valid prediction for snap_scaffold_12-snap.3043-T1
Valid prediction for snap_scaffold_12-snap.3071-T1
Valid prediction for GeneMark_model.54178_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 78413, rend_intergenic: 76853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152524, rend_intergenic: 151935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186356, rend_intergenic: 180865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 191375
-exon list size: 399


building trellis

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1.0    
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1.5    
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2.5    
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10.5    
10.7    
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11.5    
11.7    
12.0    
12.2    
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13.7    
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14.2    
14.5    
14.7    
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15.2    
15.5    
15.7    
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16.5    
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17.2    
17.5    
17.7    
18.0    
18.2    
18.5    
18.7    
19.0    
19.2    
19.5    
19.7    
20.0    
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20.4    
20.7    
20.9    
21.2    
21.4    
21.7    
21.9    
22.2    
22.4    
22.7    
22.9    
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23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
26.9    
27.2    
27.4    
27.7    
27.9    
28.2    
28.4    
28.7    
28.9    
29.2    
29.4    
29.7    
29.9    
30.2    
30.4    
30.7    
30.9    
31.2    
31.4    
31.7    
31.9    
32.2    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
34.9    
35.2    
35.4    
35.7    
35.9    
36.2    
36.4    
36.7    
36.9    
37.2    
37.4    
37.7    
37.9    
38.2    
38.4    
38.7    
38.9    
39.2    
39.4    
39.7    
39.9    
40.1    
40.4    
40.6    
40.9    
41.1    
41.4    
41.6    
41.9    
42.1    
42.4    
42.6    
42.9    
43.1    
43.4    
43.6    
43.9    
44.1    
44.4    
44.6    
44.9    
45.1    
45.4    
45.6    
45.9    
46.1    
46.4    
46.6    
46.9    
47.1    
47.4    
47.6    
47.9    
48.1    
48.4    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.1    
51.4    
51.6    
51.9    
52.1    
52.4    
52.6    
52.9    
53.1    
53.4    
53.6    
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54.1    
54.4    
54.6    
54.9    
55.1    
55.4    
55.6    
55.9    
56.1    
56.4    
56.6    
56.9    
57.1    
57.4    
57.6    
57.9    
58.1    
58.4    
58.6    
58.9    
59.1    
59.4    
59.6    
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60.1    
60.3    
60.6    
60.8    
61.1    
61.3    
61.6    
61.8    
62.1    
62.3    
62.6    
62.8    
63.1    
63.3    
63.6    
63.8    
64.1    
64.3    
64.6    
64.8    
65.1    
65.3    
65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.3    
67.6    
67.8    
68.1    
68.3    
68.6    
68.8    
69.1    
69.3    
69.6    
69.8    
70.1    
70.3    
70.6    
70.8    
71.1    
71.3    
71.6    
71.8    
72.1    
72.3    
72.6    
72.8    
73.1    
73.3    
73.6    
73.8    
74.1    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.1    
77.3    
77.6    
77.8    
78.1    
78.3    
78.6    
78.8    
79.1    
79.3    
79.6    
79.8    
80.0    
80.3    
80.5    
80.8    
81.0    
81.3    
81.5    
81.8    
82.0    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.8    
84.0    
84.3    
84.5    
84.8    
85.0    
85.3    
85.5    
85.8    
86.0    
86.3    
86.5    
86.8    
87.0    
87.3    
87.5    
87.8    
88.0    
88.3    
88.5    
88.8    
89.0    
89.3    
89.5    
89.8    
90.0    
90.3    
90.5    
90.8    
91.0    
91.3    
91.5    
91.8    
92.0    
92.3    
92.5    
92.8    
93.0    
93.3    
93.5    
93.8    
94.0    
94.3    
94.5    
94.8    
95.0    
95.3    
95.5    
95.8    
96.0    
96.3    
96.5    
96.8    
97.0    
97.3    
97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 78413, rend_intergenic: 76853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152524, rend_intergenic: 151935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186356, rend_intergenic: 180865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support