-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_1902454-2094565

-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_37862-T1
Valid prediction for GlimmerHMM_glimmerT_37867-T1
Valid prediction for Augustus_model.g25249.t1
Valid prediction for GlimmerHMM_glimmerT_37871-T1
Valid prediction for snap_scaffold_16-snap.321-T1
Valid prediction for snap_scaffold_16-snap.322-T1
Valid prediction for snap_scaffold_16-snap.280-T1
Valid prediction for Augustus_model.g25261.t1
Valid prediction for GlimmerHMM_glimmerT_37889-T1
Valid prediction for GlimmerHMM_glimmerT_37872-T1
Valid prediction for snap_scaffold_16-snap.304-T1
Valid prediction for Augustus_model.g25263.t1
Valid prediction for snap_scaffold_16-snap.325-T1
Valid prediction for Augustus_model.g25259.t1
Valid prediction for snap_scaffold_16-snap.297-T1
Valid prediction for snap_scaffold_16-snap.300-T1
Valid prediction for GlimmerHMM_glimmerT_37882-T1
Valid prediction for GlimmerHMM_glimmerT_37868-T1
Valid prediction for Augustus_model.g25260.t1
Valid prediction for GlimmerHMM_glimmerT_37891-T1
Valid prediction for GlimmerHMM_glimmerT_37890-T1
Valid prediction for snap_scaffold_16-snap.293-T1
Valid prediction for snap_scaffold_16-snap.324-T1
Valid prediction for Augustus_model.g25254.t1
Valid prediction for GlimmerHMM_glimmerT_37883-T1
Valid prediction for snap_scaffold_16-snap.292-T1
Valid prediction for snap_scaffold_16-snap.283-T1
Valid prediction for snap_scaffold_16-snap.277-T1
Valid prediction for GlimmerHMM_glimmerT_37863-T1
Valid prediction for Augustus_model.g25255.t1
Valid prediction for snap_scaffold_16-snap.310-T1
Valid prediction for GlimmerHMM_glimmerT_37888-T1
Valid prediction for snap_scaffold_16-snap.296-T1
Valid prediction for snap_scaffold_16-snap.329-T1
Valid prediction for snap_scaffold_16-snap.294-T1
Valid prediction for snap_scaffold_16-snap.320-T1
Valid prediction for snap_scaffold_16-snap.319-T1
Valid prediction for snap_scaffold_16-snap.306-T1
Valid prediction for snap_scaffold_16-snap.285-T1
Valid prediction for GlimmerHMM_glimmerT_37873-T1
Valid prediction for GlimmerHMM_glimmerT_37887-T1
Valid prediction for Augustus_model.g25262.t1
Valid prediction for snap_scaffold_16-snap.302-T1
Couldn't classify 168836, 169034
Couldn't classify 173621, 173758
Sorry, prediction pasa_asmbl_16108.p1 fails validation.
(GAG)	 AG	168836-169034	GT	GGG
(AGT)	 AG	169381-169583	GT	AGG
(GCT)	 AG	169741-169827	GT	CAG
(AGT)	 AG	171633-171719	GT	AGG
(CTG)	 AG	173621-173758	GA	TGG
-recovered pasa_asmbl_16108.p1, internal, 168836, 169034
-recovered pasa_asmbl_16108.p1, internal, 169381, 169583
-recovered pasa_asmbl_16108.p1, internal, 169741, 169827
-recovered pasa_asmbl_16108.p1, internal, 171633, 171719
Valid prediction for snap_scaffold_16-snap.313-T1
Valid prediction for snap_scaffold_16-snap.290-T1
Valid prediction for snap_scaffold_16-snap.307-T1
Valid prediction for snap_scaffold_16-snap.288-T1
Valid prediction for GlimmerHMM_glimmerT_37869-T1
Valid prediction for snap_scaffold_16-snap.286-T1
Valid prediction for Augustus_model.g25258.t1
Valid prediction for snap_scaffold_16-snap.303-T1
Valid prediction for GlimmerHMM_glimmerT_37881-T1
Valid prediction for snap_scaffold_16-snap.312-T1
Valid prediction for snap_scaffold_16-snap.316-T1
Valid prediction for snap_scaffold_16-snap.287-T1
Valid prediction for snap_scaffold_16-snap.326-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_16-snap.301-T1
Valid prediction for snap_scaffold_16-snap.281-T1
Valid prediction for snap_scaffold_16-snap.323-T1
Couldn't classify 104990, 105186
Couldn't classify 106817, 106903
Sorry, prediction pasa_asmbl_17574.p1 fails validation.
(GTG)	 AG	104990-105186	GT	AGG
(CTC)	 AG	105748-105829	GT	AGG
(GTT)	 AG	106817-106903	GG	TCG
-recovered pasa_asmbl_17574.p1, internal, 104990, 105186
-recovered pasa_asmbl_17574.p1, internal, 105748, 105829
Valid prediction for snap_scaffold_16-snap.276-T1
Valid prediction for snap_scaffold_16-snap.279-T1
Valid prediction for snap_scaffold_16-snap.309-T1
Valid prediction for Augustus_model.g25253.t1
Valid prediction for GlimmerHMM_glimmerT_37885-T1
Valid prediction for GlimmerHMM_glimmerT_37870-T1
Valid prediction for snap_scaffold_16-snap.314-T1
Valid prediction for Augustus_model.g25246.t1
Valid prediction for Augustus_model.g25251.t1
Valid prediction for GlimmerHMM_glimmerT_37875-T1
Valid prediction for GlimmerHMM_glimmerT_37865-T1
Valid prediction for GlimmerHMM_glimmerT_37864-T1
Valid prediction for snap_scaffold_16-snap.282-T1
Valid prediction for snap_scaffold_16-snap.317-T1
Valid prediction for snap_scaffold_16-snap.315-T1
Valid prediction for Augustus_model.g25257.t1
Valid prediction for snap_scaffold_16-snap.318-T1
Valid prediction for snap_scaffold_16-snap.311-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.308-T1
Valid prediction for Augustus_model.g25256.t1
Valid prediction for snap_scaffold_16-snap.291-T1
Valid prediction for GlimmerHMM_glimmerT_37879-T1
Valid prediction for GlimmerHMM_glimmerT_37886-T1
Valid prediction for Augustus_model.g25252.t1
Valid prediction for GlimmerHMM_glimmerT_37877-T1
Valid prediction for Augustus_model.g25247.t1
Valid prediction for snap_scaffold_16-snap.295-T1
Valid prediction for GlimmerHMM_glimmerT_37874-T1
Valid prediction for GlimmerHMM_glimmerT_37866-T1
Valid prediction for HiQ_model.g25245.t1
Valid prediction for GlimmerHMM_glimmerT_37878-T1
Valid prediction for Augustus_model.g25250.t1
Valid prediction for Augustus_model.g25248.t1
Valid prediction for snap_scaffold_16-snap.284-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.327-T1
Valid prediction for snap_scaffold_16-snap.328-T1
Valid prediction for GlimmerHMM_glimmerT_37884-T1
Valid prediction for GlimmerHMM_glimmerT_37880-T1
Valid prediction for snap_scaffold_16-snap.298-T1
Couldn't classify 188058, 188207
Couldn't classify 189917, 190057
Sorry, prediction pasa_asmbl_16957.p1 fails validation.
(ACT)	 AG	188058-188207	GT	AGG
(GAT)	 AG	188408-188548	GT	AGG
(GCT)	 AG	189917-190057	CT	GCC
-recovered pasa_asmbl_16957.p1, internal, 188058, 188207
-recovered pasa_asmbl_16957.p1, internal, 188408, 188548
Valid prediction for snap_scaffold_16-snap.299-T1
Valid prediction for GlimmerHMM_glimmerT_37861-T1
Valid prediction for snap_scaffold_16-snap.305-T1
Valid prediction for GlimmerHMM_glimmerT_37876-T1
Valid prediction for snap_scaffold_16-snap.289-T1
Valid prediction for snap_scaffold_16-snap.278-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18812, rend_intergenic: 8668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26457, rend_intergenic: 22340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35365, rend_intergenic: 27448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47196, rend_intergenic: 35636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54399, rend_intergenic: 54022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58994, rend_intergenic: 57615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76556, rend_intergenic: 72321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80713, rend_intergenic: 78931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88927, rend_intergenic: 83437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102676, rend_intergenic: 101672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105546, rend_intergenic: 103493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121646, rend_intergenic: 118625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135107, rend_intergenic: 133296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150262, rend_intergenic: 146670  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179038, rend_intergenic: 175945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 192112
-exon list size: 361


building trellis

0.3    
0.6    
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1.1    
1.4    
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1.9    
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3.6    
3.9    
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6.9    
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10.5    
10.7    
11.0    
11.3    
11.6    
11.8    
12.1    
12.4    
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13.8    
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14.3    
14.6    
14.9    
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16.0    
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17.1    
17.4    
17.6    
17.9    
18.2    
18.5    
18.7    
19.0    
19.3    
19.6    
19.8    
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27.8    
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28.9    
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29.8    
30.0    
30.3    
30.6    
30.9    
31.1    
31.4    
31.7    
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32.5    
32.8    
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33.3    
33.6    
33.9    
34.2    
34.4    
34.7    
35.0    
35.3    
35.5    
35.8    
36.1    
36.4    
36.6    
36.9    
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37.7    
38.0    
38.3    
38.6    
38.8    
39.1    
39.4    
39.7    
39.9    
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40.8    
41.0    
41.3    
41.6    
41.9    
42.1    
42.4    
42.7    
43.0    
43.3    
43.5    
43.8    
44.1    
44.4    
44.6    
44.9    
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45.7    
46.0    
46.3    
46.6    
46.8    
47.1    
47.4    
47.7    
47.9    
48.2    
48.5    
48.8    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.2    
51.5    
51.8    
52.1    
52.3    
52.6    
52.9    
53.2    
53.4    
53.7    
54.0    
54.3    
54.5    
54.8    
55.1    
55.4    
55.6    
55.9    
56.2    
56.5    
56.7    
57.0    
57.3    
57.6    
57.9    
58.1    
58.4    
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59.2    
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60.1    
60.3    
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73.8    
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77.1    
77.4    
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78.0    
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78.8    
79.1    
79.3    
79.6    
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80.2    
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81.0    
81.3    
81.5    
81.8    
82.1    
82.4    
82.6    
82.9    
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84.0    
84.3    
84.6    
84.8    
85.1    
85.4    
85.7    
86.0    
86.2    
86.5    
86.8    
87.1    
87.3    
87.6    
87.9    
88.2    
88.4    
88.7    
89.0    
89.3    
89.5    
89.8    
90.1    
90.4    
90.6    
90.9    
91.2    
91.5    
91.7    
92.0    
92.3    
92.6    
92.8    
93.1    
93.4    
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93.9    
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94.5    
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95.3    
95.6    
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96.1    
96.4    
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97.0    
97.2    
97.5    
97.8    
98.1    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 18812, rend_intergenic: 8668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26457, rend_intergenic: 22340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35365, rend_intergenic: 27448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47196, rend_intergenic: 35636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54399, rend_intergenic: 54022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58994, rend_intergenic: 57615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76556, rend_intergenic: 72321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80713, rend_intergenic: 78931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88927, rend_intergenic: 83437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102676, rend_intergenic: 101672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105546, rend_intergenic: 103493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121646, rend_intergenic: 118625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135107, rend_intergenic: 133296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150262, rend_intergenic: 146670  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179038, rend_intergenic: 175945  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