-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_1108893-1334963

-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_33992-T1
Valid prediction for CodingQuarry_transcript_15504-T1
Valid prediction for snap_scaffold_14-snap.216-T1
Valid prediction for pasa_asmbl_11783.p1
Valid prediction for GlimmerHMM_glimmerT_34002-T1
Valid prediction for snap_scaffold_14-snap.205-T1
Valid prediction for GlimmerHMM_glimmerT_33981-T1
Valid prediction for snap_scaffold_14-snap.200-T1
Valid prediction for GeneMark_model.58207_t
Valid prediction for GlimmerHMM_glimmerT_34005-T1
Valid prediction for CodingQuarry_transcript_15508-T1
Valid prediction for snap_scaffold_14-snap.206-T1
Valid prediction for GlimmerHMM_glimmerT_33995-T1
Valid prediction for snap_scaffold_14-snap.189-T1
Valid prediction for snap_scaffold_14-snap.195-T1
Valid prediction for CodingQuarry_transcript_15507-T1
Valid prediction for CodingQuarry_transcript_15505-T1
Couldn't classify 202648, 202894
Sorry, prediction pasa_asmbl_11789.p1 fails validation.
(CAA)	 AG	202648-202894	GT	GTG
(ACT)	 AG	202980-203181	GT	TTG
(ACA)	 AG	203301-203376	GC	AGG
(GTG)	 AG	203475-203568	GT	AGG
(AGA)	 AG	203809-204020	AC	AAA
-recovered pasa_asmbl_11789.p1, terminal, 203809, 204020
-recovered pasa_asmbl_11789.p1, internal, 202648, 202894
-recovered pasa_asmbl_11789.p1, internal, 202980, 203181
-recovered pasa_asmbl_11789.p1, internal, 203301, 203376
-recovered pasa_asmbl_11789.p1, internal, 203475, 203568
Valid prediction for GlimmerHMM_glimmerT_33987-T1
Valid prediction for Augustus_model.g22853.t1
Valid prediction for pasa_asmbl_11791.p1
Valid prediction for Augustus_model.g22858.t1
Valid prediction for snap_scaffold_14-snap.217-T1
Valid prediction for Augustus_model.g22852.t1
Valid prediction for GeneMark_model.58218_t
Valid prediction for snap_scaffold_14-snap.182-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.58219_t
Valid prediction for snap_scaffold_14-snap.194-T1
Valid prediction for GeneMark_model.58226_t
Valid prediction for Augustus_model.g22856.t1
Valid prediction for snap_scaffold_14-snap.190-T1
Valid prediction for Augustus_model.g22857.t1
Valid prediction for Augustus_model.g22841.t1
Valid prediction for GlimmerHMM_glimmerT_33998-T1
Valid prediction for GlimmerHMM_glimmerT_34013-T1
Valid prediction for pasa_asmbl_11781.p1
Valid prediction for snap_scaffold_14-snap.207-T1
Valid prediction for snap_scaffold_14-snap.201-T1
Valid prediction for Augustus_model.g22872.t1
Valid prediction for GlimmerHMM_glimmerT_34010-T1
Valid prediction for GeneMark_model.58216_t
Valid prediction for Augustus_model.g22849.t1
Valid prediction for GlimmerHMM_glimmerT_33978-T1
Valid prediction for Augustus_model.g22869.t1
Valid prediction for snap_scaffold_14-snap.203-T1
Valid prediction for GlimmerHMM_glimmerT_34012-T1
Valid prediction for snap_scaffold_14-snap.181-T1
Valid prediction for HiQ_model.g22843.t1
Valid prediction for HiQ_model.g22845.t1
Valid prediction for snap_scaffold_14-snap.202-T1
Valid prediction for HiQ_model.g22838.t1
Valid prediction for GlimmerHMM_glimmerT_33993-T1
Valid prediction for snap_scaffold_14-snap.187-T1
Valid prediction for Augustus_model.g22854.t1
Valid prediction for GlimmerHMM_glimmerT_33997-T1
Valid prediction for GeneMark_model.58231_t
Valid prediction for snap_scaffold_14-snap.204-T1
Valid prediction for Augustus_model.g22851.t1
Valid prediction for snap_scaffold_14-snap.198-T1
Valid prediction for Augustus_model.g22863.t1
Valid prediction for CodingQuarry_transcript_15501-T1
Valid prediction for GlimmerHMM_glimmerT_34008-T1
Valid prediction for HiQ_model.g22866.t1
Valid prediction for GeneMark_model.58230_t
Valid prediction for GlimmerHMM_glimmerT_33977-T1
Valid prediction for GlimmerHMM_glimmerT_34014-T1
Valid prediction for HiQ_model.g22870.t1
Valid prediction for snap_scaffold_14-snap.185-T1
Valid prediction for GeneMark_model.58215_t
Valid prediction for GeneMark_model.58210_t
Valid prediction for GlimmerHMM_glimmerT_33986-T1
Valid prediction for snap_scaffold_14-snap.215-T1
Valid prediction for GlimmerHMM_glimmerT_33991-T1
Valid prediction for GlimmerHMM_glimmerT_33983-T1
Valid prediction for CodingQuarry_transcript_15506-T1
Valid prediction for GeneMark_model.58214_t
Valid prediction for Augustus_model.g22871.t1
Valid prediction for snap_scaffold_14-snap.196-T1
Valid prediction for GeneMark_model.58205_t
Valid prediction for Augustus_model.g22846.t1
Valid prediction for GeneMark_model.58220_t
Valid prediction for GeneMark_model.58213_t
Valid prediction for GeneMark_model.58232_t
Valid prediction for Augustus_model.g22850.t1
Valid prediction for CodingQuarry_transcript_15500-T1
Valid prediction for snap_scaffold_14-snap.199-T1
Valid prediction for Augustus_model.g22855.t1
Valid prediction for Augustus_model.g22868.t1
Valid prediction for pasa_asmbl_11784.p1

-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_14-snap.208-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_14-snap.191-T1
Valid prediction for snap_scaffold_14-snap.188-T1
Valid prediction for pasa_asmbl_12842.p1
Valid prediction for GeneMark_model.58209_t
Valid prediction for GlimmerHMM_glimmerT_33985-T1
Valid prediction for snap_scaffold_14-snap.211-T1
Valid prediction for GlimmerHMM_glimmerT_34001-T1
Valid prediction for CodingQuarry_transcript_15502-T1
Valid prediction for snap_scaffold_14-snap.210-T1
Valid prediction for CodingQuarry_transcript_15503-T1
Valid prediction for GlimmerHMM_glimmerT_34009-T1
Valid prediction for snap_scaffold_14-snap.192-T1
Valid prediction for GlimmerHMM_glimmerT_33988-T1
Valid prediction for GlimmerHMM_glimmerT_33990-T1
Valid prediction for GeneMark_model.58228_t
Valid prediction for snap_scaffold_14-snap.186-T1
Valid prediction for Augustus_model.g22867.t1
Valid prediction for Augustus_model.g22842.t1
Valid prediction for snap_scaffold_14-snap.218-T1
Valid prediction for GlimmerHMM_glimmerT_33994-T1
Valid prediction for Augustus_model.g22847.t1
Valid prediction for GeneMark_model.58225_t
Valid prediction for GlimmerHMM_glimmerT_34007-T1
Valid prediction for snap_scaffold_14-snap.183-T1
Valid prediction for GeneMark_model.58211_t
Valid prediction for GeneMark_model.58208_t
Valid prediction for Augustus_model.g22861.t1
Valid prediction for Augustus_model.g22859.t1
Valid prediction for GeneMark_model.58206_t
Valid prediction for GeneMark_model.58233_t
Valid prediction for GlimmerHMM_glimmerT_33979-T1
Valid prediction for GlimmerHMM_glimmerT_34006-T1
Valid prediction for GlimmerHMM_glimmerT_34004-T1
Valid prediction for GlimmerHMM_glimmerT_34000-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g22839.t1
Valid prediction for GlimmerHMM_glimmerT_34011-T1
Valid prediction for snap_scaffold_14-snap.197-T1
Valid prediction for GlimmerHMM_glimmerT_33996-T1
Valid prediction for snap_scaffold_14-snap.212-T1
Valid prediction for GlimmerHMM_glimmerT_34015-T1
Valid prediction for GlimmerHMM_glimmerT_33984-T1
Valid prediction for GeneMark_model.58224_t
Valid prediction for GeneMark_model.58212_t
Valid prediction for HiQ_model.g22844.t1
Valid prediction for Augustus_model.g22865.t1
Valid prediction for snap_scaffold_14-snap.213-T1
Valid prediction for GeneMark_model.58223_t
Valid prediction for Augustus_model.g22840.t1
Valid prediction for Augustus_model.g22862.t1
Valid prediction for GeneMark_model.58217_t
Valid prediction for pasa_asmbl_12845.p1
Valid prediction for snap_scaffold_14-snap.209-T1
Valid prediction for GlimmerHMM_glimmerT_33980-T1
Valid prediction for snap_scaffold_14-snap.193-T1
Valid prediction for Augustus_model.g22848.t1
Valid prediction for GlimmerHMM_glimmerT_34003-T1
Valid prediction for GlimmerHMM_glimmerT_33999-T1
Valid prediction for GlimmerHMM_glimmerT_33989-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33982-T1
Valid prediction for snap_scaffold_14-snap.184-T1
Valid prediction for GeneMark_model.58221_t
Valid prediction for GeneMark_model.58204_t
Valid prediction for Augustus_model.g22860.t1
Valid prediction for snap_scaffold_14-snap.214-T1
Valid prediction for Augustus_model.g22864.t1
Valid prediction for GeneMark_model.58222_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10750, rend_intergenic: 5977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 226071
-exon list size: 445


building trellis

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28.9    
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30.6    
30.9    
31.1    
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31.8    
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32.9    
33.1    
33.3    
33.6    
33.8    
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34.2    
34.5    
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34.9    
35.1    
35.3    
35.6    
35.8    
36.0    
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37.6    
37.8    
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38.9    
39.1    
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43.8    
44.1    
44.3    
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47.9    
48.1    
48.3    
48.5    
48.8    
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49.4    
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50.1    
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50.6    
50.8    
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55.0    
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56.8    
57.0    
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57.7    
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58.6    
58.8    
59.1    
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59.5    
59.7    
60.0    
60.2    
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60.6    
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61.1    
61.3    
61.5    
61.7    
62.0    
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62.6    
62.9    
63.1    
63.3    
63.5    
63.8    
64.0    
64.2    
64.4    
64.7    
64.9    
65.1    
65.3    
65.5    
65.8    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
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67.6    
67.8    
68.0    
68.2    
68.5    
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68.9    
69.1    
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69.6    
69.8    
70.0    
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71.1    
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71.6    
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72.3    
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72.9    
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74.0    
74.3    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.8    
76.1    
76.3    
76.5    
76.7    
77.0    
77.2    
77.4    
77.6    
77.9    
78.1    
78.3    
78.5    
78.7    
79.0    
79.2    
79.4    
79.6    
79.9    
80.1    
80.3    
80.5    
80.8    
81.0    
81.2    
81.4    
81.7    
81.9    
82.1    
82.3    
82.6    
82.8    
83.0    
83.2    
83.4    
83.7    
83.9    
84.1    
84.3    
84.6    
84.8    
85.0    
85.2    
85.5    
85.7    
85.9    
86.1    
86.4    
86.6    
86.8    
87.0    
87.2    
87.5    
87.7    
87.9    
88.1    
88.4    
88.6    
88.8    
89.0    
89.3    
89.5    
89.7    
89.9    
90.2    
90.4    
90.6    
90.8    
91.1    
91.3    
91.5    
91.7    
91.9    
92.2    
92.4    
92.6    
92.8    
93.1    
93.3    
93.5    
93.7    
94.0    
94.2    
94.4    
94.6    
94.9    
95.1    
95.3    
95.5    
95.7    
96.0    
96.2    
96.4    
96.6    
96.9    
97.1    
97.3    
97.5    
97.8    
98.0    
98.2    
98.4    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 10750, rend_intergenic: 5977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 38 predictions persist after filtering for low support