-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_11/scaffold_11_9191803-9356667

-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 GeneMark_model.48816_t
Valid prediction for GeneMark_model.48798_t
Valid prediction for GeneMark_model.48796_t
Valid prediction for GlimmerHMM_glimmerT_28262-T1
Valid prediction for Augustus_model.g18846.t1
Valid prediction for Augustus_model.g18847.t1
Valid prediction for GlimmerHMM_glimmerT_28271-T1
Valid prediction for snap_scaffold_11-snap.2120-T1
Valid prediction for GeneMark_model.48810_t
Valid prediction for Augustus_model.g18848.t1
Couldn't classify 99495, 99881
Sorry, prediction pasa_asmbl_6909.p2 fails validation.
(CTC)	 CT	99495-99881	GT	AGG
Valid prediction for GlimmerHMM_glimmerT_28249-T1
Valid prediction for HiQ_model.g18856.t1
Couldn't classify 62083, 62199
Sorry, prediction pasa_asmbl_5842.p1 fails validation.
(GCT)	 CA	62083-62199	GT	ATG
(GCC)	 AG	62334-62419	GT	AGG
(GCT)	 AG	63907-64024	GT	AGG
(ATC)	 AG	65642-65719	TT	GAT
-recovered pasa_asmbl_5842.p1, terminal, 65642, 65719
-recovered pasa_asmbl_5842.p1, internal, 62334, 62419
-recovered pasa_asmbl_5842.p1, internal, 63907, 64024
Valid prediction for GeneMark_model.48783_t
Valid prediction for GeneMark_model.48806_t
Valid prediction for Augustus_model.g18855.t1
Valid prediction for GeneMark_model.48779_t
Valid prediction for Augustus_model.g18853.t1
Valid prediction for GeneMark_model.48775_t
Valid prediction for GlimmerHMM_glimmerT_28266-T1
Valid prediction for GeneMark_model.48781_t
Valid prediction for GlimmerHMM_glimmerT_28264-T1
Valid prediction for GlimmerHMM_glimmerT_28251-T1
Valid prediction for snap_scaffold_11-snap.2103-T1
Valid prediction for GeneMark_model.48807_t
Valid prediction for Augustus_model.g18861.t1
Valid prediction for HiQ_model.g18854.t1
Valid prediction for HiQ_model.g18850.t1
Valid prediction for GeneMark_model.48787_t
Valid prediction for snap_scaffold_11-snap.2106-T1
Valid prediction for GeneMark_model.48814_t
Valid prediction for GeneMark_model.48788_t
Valid prediction for CodingQuarry_transcript_8174-T1
Couldn't classify 100532, 100587
Sorry, prediction pasa_asmbl_5847.p1 fails validation.
(GGC)	 AG	100532-100587	GT	AGG
(GCA)	 AG	101273-101564	GT	AGG
(GTC)	 AG	101828-101956	GG	AAG
-recovered pasa_asmbl_5847.p1, terminal, 100532, 100587
-recovered pasa_asmbl_5847.p1, terminal, 101828, 101956
-recovered pasa_asmbl_5847.p1, internal, 100532, 100587
-recovered pasa_asmbl_5847.p1, internal, 101273, 101564
Valid prediction for GeneMark_model.48804_t
Valid prediction for GeneMark_model.48794_t
Valid prediction for snap_scaffold_11-snap.2107-T1
Valid prediction for GlimmerHMM_glimmerT_28252-T1
Valid prediction for GeneMark_model.48811_t
Valid prediction for HiQ_model.g18849.t1
Valid prediction for GeneMark_model.48801_t
Valid prediction for pasa_asmbl_5845.p1
Valid prediction for GlimmerHMM_glimmerT_28259-T1
Valid prediction for GlimmerHMM_glimmerT_28255-T1
Valid prediction for snap_scaffold_11-snap.2118-T1
Valid prediction for snap_scaffold_11-snap.2117-T1
Valid prediction for CodingQuarry_transcript_8175-T1
Valid prediction for GlimmerHMM_glimmerT_28258-T1
Valid prediction for GeneMark_model.48791_t
Valid prediction for snap_scaffold_11-snap.2098-T1
Valid prediction for GlimmerHMM_glimmerT_28270-T1
Valid prediction for snap_scaffold_11-snap.2109-T1
Valid prediction for snap_scaffold_11-snap.2114-T1
Valid prediction for snap_scaffold_11-snap.2108-T1
Valid prediction for GeneMark_model.48784_t
Valid prediction for snap_scaffold_11-snap.2097-T1
Valid prediction for snap_scaffold_11-snap.2101-T1
Valid prediction for GeneMark_model.48778_t

-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.48802_t
Valid prediction for GlimmerHMM_glimmerT_28250-T1
Valid prediction for GeneMark_model.48815_t
Valid prediction for snap_scaffold_11-snap.2100-T1
Valid prediction for GlimmerHMM_glimmerT_28267-T1
Valid prediction for GeneMark_model.48797_t
Valid prediction for GeneMark_model.48812_t
Valid prediction for Augustus_model.g18857.t1
Valid prediction for GlimmerHMM_glimmerT_28268-T1
Valid prediction for Augustus_model.g18845.t1
Valid prediction for GlimmerHMM_glimmerT_28269-T1
Valid prediction for snap_scaffold_11-snap.2105-T1
Valid prediction for GeneMark_model.48795_t
Valid prediction for GlimmerHMM_glimmerT_28253-T1
Valid prediction for snap_scaffold_11-snap.2094-T1
Valid prediction for snap_scaffold_11-snap.2104-T1
Valid prediction for GeneMark_model.48800_t
Valid prediction for snap_scaffold_11-snap.2110-T1
Valid prediction for snap_scaffold_11-snap.2119-T1
Valid prediction for GlimmerHMM_glimmerT_28256-T1
Valid prediction for GlimmerHMM_glimmerT_28261-T1
Valid prediction for GeneMark_model.48780_t
Valid prediction for GeneMark_model.48805_t
Valid prediction for GlimmerHMM_glimmerT_28254-T1
Valid prediction for GlimmerHMM_glimmerT_28260-T1
Valid prediction for Augustus_model.g18852.t1
Valid prediction for Augustus_model.g18844.t1
Valid prediction for GlimmerHMM_glimmerT_28257-T1
Valid prediction for GlimmerHMM_glimmerT_28265-T1
Valid prediction for snap_scaffold_11-snap.2099-T1
Valid prediction for snap_scaffold_11-snap.2111-T1
Valid prediction for snap_scaffold_11-snap.2121-T1
Valid prediction for GeneMark_model.48789_t
Valid prediction for pasa_asmbl_6906.p1
Valid prediction for GeneMark_model.48799_t
Valid prediction for snap_scaffold_11-snap.2115-T1
Valid prediction for GeneMark_model.48777_t
Valid prediction for snap_scaffold_11-snap.2116-T1
Valid prediction for GeneMark_model.48790_t
Valid prediction for GeneMark_model.48785_t
Valid prediction for CodingQuarry_transcript_8173-T1
Valid prediction for GeneMark_model.48773_t
Valid prediction for GeneMark_model.48809_t
Valid prediction for HiQ_model.g18851.t1
Valid prediction for Augustus_model.g18858.t1
Valid prediction for snap_scaffold_11-snap.2122-T1
Valid prediction for GeneMark_model.48803_t
Valid prediction for GlimmerHMM_glimmerT_28263-T1
Valid prediction for Augustus_model.g18860.t1
Valid prediction for GeneMark_model.48808_t
Valid prediction for GeneMark_model.48786_t
Valid prediction for GeneMark_model.48772_t
Valid prediction for snap_scaffold_11-snap.2102-T1
Valid prediction for GlimmerHMM_glimmerT_28248-T1
Valid prediction for snap_scaffold_11-snap.2095-T1
Valid prediction for snap_scaffold_11-snap.2093-T1
Valid prediction for snap_scaffold_11-snap.2113-T1
Valid prediction for HiQ_model.g18843.t1
Valid prediction for snap_scaffold_11-snap.2112-T1
Valid prediction for snap_scaffold_11-snap.2096-T1
Valid prediction for GeneMark_model.48813_t
Valid prediction for GlimmerHMM_glimmerT_28247-T1
Valid prediction for Augustus_model.g18859.t1
Valid prediction for GeneMark_model.48776_t
Valid prediction for GeneMark_model.48792_t
Valid prediction for GeneMark_model.48793_t
Valid prediction for GeneMark_model.48782_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 37352, rend_intergenic: 30649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49763, rend_intergenic: 38612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66653, rend_intergenic: 53230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111312, rend_intergenic: 104940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129909, rend_intergenic: 127454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133141, rend_intergenic: 130599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146679, rend_intergenic: 144482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151034, rend_intergenic: 148329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157486, rend_intergenic: 153543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164865
-exon list size: 582


building trellis

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18.3    
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18.7    
18.8    
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24.0    
24.1    
24.3    
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25.2    
25.3    
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25.7    
25.9    
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26.2    
26.4    
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26.9    
27.1    
27.2    
27.4    
27.6    
27.7    
27.9    
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28.3    
28.4    
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28.8    
28.9    
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29.3    
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29.8    
30.0    
30.1    
30.3    
30.5    
30.7    
30.8    
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31.2    
31.3    
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31.8    
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32.2    
32.4    
32.5    
32.7    
32.9    
33.0    
33.2    
33.4    
33.6    
33.7    
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34.6    
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37.3    
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38.2    
38.4    
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38.7    
38.9    
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40.2    
40.4    
40.6    
40.8    
40.9    
41.1    
41.3    
41.4    
41.6    
41.8    
42.0    
42.1    
42.3    
42.5    
42.6    
42.8    
43.0    
43.2    
43.3    
43.5    
43.7    
43.8    
44.0    
44.2    
44.3    
44.5    
44.7    
44.9    
45.0    
45.2    
45.4    
45.5    
45.7    
45.9    
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46.2    
46.4    
46.6    
46.7    
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47.1    
47.3    
47.4    
47.6    
47.8    
47.9    
48.1    
48.3    
48.5    
48.6    
48.8    
49.0    
49.1    
49.3    
49.5    
49.7    
49.8    
50.0    
50.2    
50.3    
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50.7    
50.9    
51.0    
51.2    
51.4    
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51.9    
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52.2    
52.4    
52.6    
52.7    
52.9    
53.1    
53.3    
53.4    
53.6    
53.8    
53.9    
54.1    
54.3    
54.5    
54.6    
54.8    
55.0    
55.1    
55.3    
55.5    
55.7    
55.8    
56.0    
56.2    
56.3    
56.5    
56.7    
56.8    
57.0    
57.2    
57.4    
57.5    
57.7    
57.9    
58.0    
58.2    
58.4    
58.6    
58.7    
58.9    
59.1    
59.2    
59.4    
59.6    
59.8    
59.9    
60.1    
60.3    
60.4    
60.6    
60.8    
61.0    
61.1    
61.3    
61.5    
61.6    
61.8    
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62.2    
62.3    
62.5    
62.7    
62.8    
63.0    
63.2    
63.4    
63.5    
63.7    
63.9    
64.0    
64.2    
64.4    
64.6    
64.7    
64.9    
65.1    
65.2    
65.4    
65.6    
65.8    
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66.1    
66.3    
66.4    
66.6    
66.8    
67.0    
67.1    
67.3    
67.5    
67.6    
67.8    
68.0    
68.2    
68.3    
68.5    
68.7    
68.8    
69.0    
69.2    
69.3    
69.5    
69.7    
69.9    
70.0    
70.2    
70.4    
70.5    
70.7    
70.9    
71.1    
71.2    
71.4    
71.6    
71.7    
71.9    
72.1    
72.3    
72.4    
72.6    
72.8    
72.9    
73.1    
73.3    
73.5    
73.6    
73.8    
74.0    
74.1    
74.3    
74.5    
74.7    
74.8    
75.0    
75.2    
75.3    
75.5    
75.7    
75.9    
76.0    
76.2    
76.4    
76.5    
76.7    
76.9    
77.1    
77.2    
77.4    
77.6    
77.7    
77.9    
78.1    
78.3    
78.4    
78.6    
78.8    
78.9    
79.1    
79.3    
79.5    
79.6    
79.8    
80.0    
80.1    
80.3    
80.5    
80.7    
80.8    
81.0    
81.2    
81.3    
81.5    
81.7    
81.8    
82.0    
82.2    
82.4    
82.5    
82.7    
82.9    
83.0    
83.2    
83.4    
83.6    
83.7    
83.9    
84.1    
84.2    
84.4    
84.6    
84.8    
84.9    
85.1    
85.3    
85.4    
85.6    
85.8    
86.0    
86.1    
86.3    
86.5    
86.6    
86.8    
87.0    
87.2    
87.3    
87.5    
87.7    
87.8    
88.0    
88.2    
88.4    
88.5    
88.7    
88.9    
89.0    
89.2    
89.4    
89.6    
89.7    
89.9    
90.1    
90.2    
90.4    
90.6    
90.8    
90.9    
91.1    
91.3    
91.4    
91.6    
91.8    
92.0    
92.1    
92.3    
92.5    
92.6    
92.8    
93.0    
93.2    
93.3    
93.5    
93.7    
93.8    
94.0    
94.2    
94.3    
94.5    
94.7    
94.9    
95.0    
95.2    
95.4    
95.5    
95.7    
95.9    
96.1    
96.2    
96.4    
96.6    
96.7    
96.9    
97.1    
97.3    
97.4    
97.6    
97.8    
97.9    
98.1    
98.3    
98.5    
98.6    
98.8    
99.0    
99.1    
99.3    
99.5    
99.7    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 37352, rend_intergenic: 30649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49763, rend_intergenic: 38612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66653, rend_intergenic: 53230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111312, rend_intergenic: 104940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129909, rend_intergenic: 127454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133141, rend_intergenic: 130599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146679, rend_intergenic: 144482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151034, rend_intergenic: 148329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157486, rend_intergenic: 153543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support