-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_1156771-1381722

-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_19-snap.285-T1
Valid prediction for snap_scaffold_19-snap.269-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_43603-T1
Valid prediction for snap_scaffold_19-snap.268-T1
Valid prediction for GlimmerHMM_glimmerT_43599-T1
Valid prediction for snap_scaffold_19-snap.260-T1
Valid prediction for GlimmerHMM_glimmerT_43586-T1
Valid prediction for snap_scaffold_19-snap.304-T1
Valid prediction for snap_scaffold_19-snap.300-T1
Valid prediction for snap_scaffold_19-snap.281-T1
Valid prediction for snap_scaffold_19-snap.278-T1
Valid prediction for CodingQuarry_transcript_25594-T1
Valid prediction for HiQ_model.g28958.t1
Valid prediction for snap_scaffold_19-snap.282-T1
Valid prediction for snap_scaffold_19-snap.276-T1
Valid prediction for snap_scaffold_19-snap.292-T1
Valid prediction for snap_scaffold_19-snap.288-T1
Valid prediction for snap_scaffold_19-snap.274-T1
Valid prediction for Augustus_model.g28956.t1
Valid prediction for GlimmerHMM_glimmerT_43576-T1
Valid prediction for pasa_asmbl_21918.p1
Valid prediction for GlimmerHMM_glimmerT_43577-T1
Valid prediction for snap_scaffold_19-snap.267-T1
Valid prediction for GlimmerHMM_glimmerT_43592-T1
Valid prediction for snap_scaffold_19-snap.298-T1
Valid prediction for snap_scaffold_19-snap.259-T1
Valid prediction for GlimmerHMM_glimmerT_43596-T1
Couldn't classify 8339, 8355
Couldn't classify 10788, 10892
Sorry, prediction pasa_asmbl_21921.p2 fails validation.
(AAA)	 AG	8339-8355	GT	TCG
(GTG)	 AG	9202-9307	GT	CGG
(GAG)	 AG	9954-10115	GT	AGG
(GTG)	 AG	10788-10892	AA	GCA
-recovered pasa_asmbl_21921.p2, internal, 8339, 8355
-recovered pasa_asmbl_21921.p2, internal, 9202, 9307
-recovered pasa_asmbl_21921.p2, internal, 9954, 10115
Valid prediction for snap_scaffold_19-snap.287-T1
Valid prediction for snap_scaffold_19-snap.291-T1
Valid prediction for GlimmerHMM_glimmerT_43588-T1
Valid prediction for snap_scaffold_19-snap.302-T1
Valid prediction for snap_scaffold_19-snap.289-T1
Valid prediction for snap_scaffold_19-snap.272-T1
Valid prediction for snap_scaffold_19-snap.295-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_43601-T1
Valid prediction for snap_scaffold_19-snap.256-T1
Valid prediction for GlimmerHMM_glimmerT_43581-T1
Valid prediction for GlimmerHMM_glimmerT_43604-T1
Valid prediction for snap_scaffold_19-snap.264-T1
Valid prediction for snap_scaffold_19-snap.275-T1
Valid prediction for snap_scaffold_19-snap.265-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_19-snap.303-T1
Valid prediction for GlimmerHMM_glimmerT_43583-T1
Valid prediction for GlimmerHMM_glimmerT_43605-T1
Valid prediction for snap_scaffold_19-snap.294-T1
Valid prediction for snap_scaffold_19-snap.262-T1
Valid prediction for Augustus_model.g28957.t1
Valid prediction for GlimmerHMM_glimmerT_43597-T1
Valid prediction for snap_scaffold_19-snap.283-T1
Valid prediction for GlimmerHMM_glimmerT_43587-T1
Valid prediction for snap_scaffold_19-snap.257-T1
Valid prediction for snap_scaffold_19-snap.297-T1
Valid prediction for GlimmerHMM_glimmerT_43593-T1
Valid prediction for snap_scaffold_19-snap.253-T1
Valid prediction for Augustus_model.g28960.t1
Valid prediction for snap_scaffold_19-snap.270-T1
Valid prediction for snap_scaffold_19-snap.266-T1
Valid prediction for GlimmerHMM_glimmerT_43578-T1
Valid prediction for snap_scaffold_19-snap.273-T1
Valid prediction for snap_scaffold_19-snap.293-T1
Valid prediction for GlimmerHMM_glimmerT_43598-T1
Valid prediction for snap_scaffold_19-snap.286-T1
Valid prediction for snap_scaffold_19-snap.284-T1
Valid prediction for GlimmerHMM_glimmerT_43590-T1
Valid prediction for snap_scaffold_19-snap.299-T1
Valid prediction for GlimmerHMM_glimmerT_43589-T1
Valid prediction for Augustus_model.g28966.t1
Valid prediction for GlimmerHMM_glimmerT_43600-T1
Valid prediction for GlimmerHMM_glimmerT_43595-T1
Valid prediction for GlimmerHMM_glimmerT_43585-T1
Valid prediction for GlimmerHMM_glimmerT_43579-T1
Valid prediction for GlimmerHMM_glimmerT_43584-T1
Valid prediction for snap_scaffold_19-snap.301-T1
Valid prediction for GlimmerHMM_glimmerT_43602-T1
Valid prediction for snap_scaffold_19-snap.255-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_19-snap.258-T1
Valid prediction for snap_scaffold_19-snap.263-T1
Valid prediction for snap_scaffold_19-snap.254-T1
Valid prediction for snap_scaffold_19-snap.271-T1
Valid prediction for snap_scaffold_19-snap.296-T1
Valid prediction for Augustus_model.g28959.t1
Valid prediction for Augustus_model.g28961.t1
Valid prediction for Augustus_model.g28965.t1
Valid prediction for snap_scaffold_19-snap.279-T1
Valid prediction for Augustus_model.g28962.t1
Valid prediction for Augustus_model.g28963.t1
Valid prediction for GlimmerHMM_glimmerT_43582-T1
Valid prediction for snap_scaffold_19-snap.280-T1
Valid prediction for GlimmerHMM_glimmerT_43580-T1
Valid prediction for snap_scaffold_19-snap.261-T1
Valid prediction for Augustus_model.g28964.t1
Valid prediction for snap_scaffold_19-snap.290-T1
Valid prediction for snap_scaffold_19-snap.277-T1
Valid prediction for GlimmerHMM_glimmerT_43591-T1
Valid prediction for GlimmerHMM_glimmerT_43594-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12924, rend_intergenic: 11798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15931, rend_intergenic: 13251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27519, rend_intergenic: 18685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28903, rend_intergenic: 27633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62952, rend_intergenic: 57100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75236, rend_intergenic: 63439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77650, rend_intergenic: 77207  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92483, rend_intergenic: 84205  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93700, rend_intergenic: 92547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102675, rend_intergenic: 93796  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105465, rend_intergenic: 103623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108249, rend_intergenic: 105848  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133620, rend_intergenic: 132367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136863, rend_intergenic: 133684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141037, rend_intergenic: 137103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145401, rend_intergenic: 141300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 175352, rend_intergenic: 159195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180176, rend_intergenic: 176417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187206, rend_intergenic: 184918  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201464, rend_intergenic: 197939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202399, rend_intergenic: 202087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207872, rend_intergenic: 203042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 224952
-exon list size: 412


building trellis

0.2    
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1.0    
1.2    
1.4    
1.7    
1.9    
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10.9    
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11.8    
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13.8    
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14.3    
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15.2    
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15.9    
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19.6    
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23.9    
24.2    
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24.6    
24.9    
25.1    
25.4    
25.6    
25.8    
26.1    
26.3    
26.6    
26.8    
27.1    
27.3    
27.5    
27.8    
28.0    
28.3    
28.5    
28.7    
29.0    
29.2    
29.5    
29.7    
30.0    
30.2    
30.4    
30.7    
30.9    
31.2    
31.4    
31.6    
31.9    
32.1    
32.4    
32.6    
32.9    
33.1    
33.3    
33.6    
33.8    
34.1    
34.3    
34.5    
34.8    
35.0    
35.3    
35.5    
35.7    
36.0    
36.2    
36.5    
36.7    
37.0    
37.2    
37.4    
37.7    
37.9    
38.2    
38.4    
38.6    
38.9    
39.1    
39.4    
39.6    
39.9    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.5    
41.8    
42.0    
42.3    
42.5    
42.8    
43.0    
43.2    
43.5    
43.7    
44.0    
44.2    
44.4    
44.7    
44.9    
45.2    
45.4    
45.7    
45.9    
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46.4    
46.6    
46.9    
47.1    
47.3    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.0    
49.3    
49.5    
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50.2    
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51.0    
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53.6    
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54.6    
54.8    
55.1    
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55.6    
55.8    
56.0    
56.3    
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69.3    
69.6    
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71.3    
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71.7    
72.0    
72.2    
72.5    
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73.2    
73.4    
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73.9    
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75.1    
75.4    
75.6    
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76.1    
76.3    
76.6    
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77.3    
77.5    
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78.0    
78.3    
78.5    
78.7    
79.0    
79.2    
79.5    
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80.0    
80.2    
80.4    
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81.2    
81.4    
81.6    
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82.1    
82.4    
82.6    
82.9    
83.1    
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83.8    
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84.3    
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85.3    
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86.0    
86.2    
86.5    
86.7    
87.0    
87.2    
87.4    
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87.9    
88.2    
88.4    
88.6    
88.9    
89.1    
89.4    
89.6    
89.9    
90.1    
90.3    
90.6    
90.8    
91.1    
91.3    
91.5    
91.8    
92.0    
92.3    
92.5    
92.8    
93.0    
93.2    
93.5    
93.7    
94.0    
94.2    
94.4    
94.7    
94.9    
95.2    
95.4    
95.7    
95.9    
96.1    
96.4    
96.6    
96.9    
97.1    
97.3    
97.6    
97.8    
98.1    
98.3    
98.6    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 12924, rend_intergenic: 11798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15931, rend_intergenic: 13251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27519, rend_intergenic: 18685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28903, rend_intergenic: 27633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62952, rend_intergenic: 57100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75236, rend_intergenic: 63439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77650, rend_intergenic: 77207  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92483, rend_intergenic: 84205  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93700, rend_intergenic: 92547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102675, rend_intergenic: 93796  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105465, rend_intergenic: 103623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108249, rend_intergenic: 105848  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133620, rend_intergenic: 132367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136863, rend_intergenic: 133684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141037, rend_intergenic: 137103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145401, rend_intergenic: 141300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 175352, rend_intergenic: 159195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180176, rend_intergenic: 176417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187206, rend_intergenic: 184918  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201464, rend_intergenic: 197939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202399, rend_intergenic: 202087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207872, rend_intergenic: 203042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support