-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_2345865-2581219

-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_23-snap.479-T1
Valid prediction for Augustus_model.g33844.t1
Valid prediction for snap_scaffold_23-snap.457-T1
Valid prediction for GlimmerHMM_glimmerT_50648-T1
Valid prediction for GlimmerHMM_glimmerT_50643-T1
Valid prediction for snap_scaffold_23-snap.477-T1
Valid prediction for snap_scaffold_23-snap.468-T1
Couldn't classify 25453, 27366
Sorry, prediction pasa_asmbl_31397.p1 fails validation.
(ATG)	 AC	25453-27366	CC	CCC
Valid prediction for pasa_asmbl_31405.p1
Valid prediction for snap_scaffold_23-snap.469-T1
Valid prediction for snap_scaffold_23-snap.470-T1
Valid prediction for GlimmerHMM_glimmerT_50651-T1
Valid prediction for snap_scaffold_23-snap.454-T1
Valid prediction for GlimmerHMM_glimmerT_50650-T1
Valid prediction for Augustus_model.g33839.t1
Valid prediction for Augustus_model.g33846.t1
Valid prediction for snap_scaffold_23-snap.460-T1
Valid prediction for pasa_asmbl_31401.p1
Valid prediction for snap_scaffold_23-snap.467-T1
Valid prediction for HiQ_model.g33835.t1
Valid prediction for pasa_asmbl_31399.p1
Valid prediction for snap_scaffold_23-snap.464-T1
Valid prediction for CodingQuarry_transcript_35587-T1
Valid prediction for snap_scaffold_23-snap.462-T1
Valid prediction for snap_scaffold_23-snap.443-T1
Valid prediction for GlimmerHMM_glimmerT_50655-T1
Valid prediction for snap_scaffold_23-snap.445-T1
Valid prediction for CodingQuarry_transcript_35585-T1
Valid prediction for snap_scaffold_23-snap.471-T1
Valid prediction for snap_scaffold_23-snap.472-T1
Valid prediction for GlimmerHMM_glimmerT_50666-T1
Valid prediction for GlimmerHMM_glimmerT_50657-T1
Valid prediction for snap_scaffold_23-snap.448-T1
Valid prediction for snap_scaffold_23-snap.447-T1
Valid prediction for Augustus_model.g33843.t1
Valid prediction for pasa_asmbl_31407.p1
Valid prediction for GlimmerHMM_glimmerT_50659-T1
Valid prediction for snap_scaffold_23-snap.446-T1
Valid prediction for GlimmerHMM_glimmerT_50652-T1
Valid prediction for Augustus_model.g33841.t1
Valid prediction for Augustus_model.g33834.t1
Valid prediction for snap_scaffold_23-snap.459-T1
Valid prediction for snap_scaffold_23-snap.463-T1
Valid prediction for GlimmerHMM_glimmerT_50647-T1
Valid prediction for snap_scaffold_23-snap.455-T1
Valid prediction for Augustus_model.g33833.t1
Valid prediction for Augustus_model.g33838.t1
Valid prediction for snap_scaffold_23-snap.456-T1
Valid prediction for snap_scaffold_23-snap.466-T1
Valid prediction for GlimmerHMM_glimmerT_50653-T1
Valid prediction for CodingQuarry_transcript_35586-T1
Valid prediction for snap_scaffold_23-snap.478-T1
Valid prediction for Augustus_model.g33842.t1
Valid prediction for CodingQuarry_transcript_35584-T1
Valid prediction for snap_scaffold_23-snap.444-T1
Valid prediction for GlimmerHMM_glimmerT_50658-T1
Valid prediction for HiQ_model.g33847.t1
Valid prediction for snap_scaffold_23-snap.449-T1
Valid prediction for GlimmerHMM_glimmerT_50660-T1
Valid prediction for snap_scaffold_23-snap.451-T1
Valid prediction for GlimmerHMM_glimmerT_50665-T1
Valid prediction for HiQ_model.g33840.t1
Couldn't classify 27649, 31617
Sorry, prediction pasa_asmbl_31398.p1 fails validation.
(GTT)	 AT	27649-31617	GT	GAG
Couldn't classify 24222, 24227
Couldn't classify 24981, 25142
Sorry, prediction pasa_asmbl_31396.p1 fails validation.
(AAT)	 CT	24222-24227	GT	AGG
(GCC)	 AG	24328-24405	GT	AGG
(GTC)	 AG	24696-24812	GT	AGG
(GAA)	 AG	24981-25142	GG	GGG
-recovered pasa_asmbl_31396.p1, internal, 24328, 24405
-recovered pasa_asmbl_31396.p1, internal, 24696, 24812

-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_23-snap.450-T1
Valid prediction for snap_scaffold_23-snap.475-T1
Valid prediction for snap_scaffold_23-snap.452-T1
Valid prediction for GlimmerHMM_glimmerT_50664-T1
Couldn't classify 17304, 17384
Sorry, prediction pasa_asmbl_30741.p1 fails validation.
(ATG)	 AG	14352-14435	GT	CGG
(CCG)	 AG	15645-15743	GT	CAG
(GTT)	 AG	16236-16298	GT	AGG
(GGT)	 AG	16459-16586	GT	TGG
(GTG)	 AG	16815-16929	GT	TGG
(GTG)	 AG	17304-17384	GT	TGG
-recovered pasa_asmbl_30741.p1, initial, 14352, 14435
-recovered pasa_asmbl_30741.p1, internal, 14352, 14435
-recovered pasa_asmbl_30741.p1, internal, 15645, 15743
-recovered pasa_asmbl_30741.p1, internal, 16236, 16298
-recovered pasa_asmbl_30741.p1, internal, 16459, 16586
-recovered pasa_asmbl_30741.p1, internal, 16815, 16929
-recovered pasa_asmbl_30741.p1, internal, 17304, 17384
Valid prediction for snap_scaffold_23-snap.453-T1
Valid prediction for GlimmerHMM_glimmerT_50661-T1
Valid prediction for HiQ_model.g33845.t1
Valid prediction for GlimmerHMM_glimmerT_50642-T1
Valid prediction for GlimmerHMM_glimmerT_50645-T1
Valid prediction for snap_scaffold_23-snap.476-T1
Valid prediction for GlimmerHMM_glimmerT_50656-T1
Valid prediction for GlimmerHMM_glimmerT_50646-T1
Valid prediction for GlimmerHMM_glimmerT_50644-T1
Valid prediction for snap_scaffold_23-snap.473-T1
Valid prediction for Augustus_model.g33837.t1
Valid prediction for Augustus_model.g33836.t1
Valid prediction for snap_scaffold_23-snap.458-T1
Valid prediction for GlimmerHMM_glimmerT_50663-T1
Couldn't classify 17634, 17723
Sorry, prediction pasa_asmbl_30740.p1 fails validation.
(TCC)	 AC	17634-17723	GT	AGG
(GTC)	 AG	18222-18293	GT	AGG
(ACT)	 AG	18522-18634	GT	TGG
(GAT)	 AG	18877-18974	GT	GGG
(GTG)	 AG	19234-19397	GT	AGG
(AGA)	 AG	19622-19867	CC	GAC
-recovered pasa_asmbl_30740.p1, terminal, 19622, 19867
-recovered pasa_asmbl_30740.p1, internal, 18222, 18293
-recovered pasa_asmbl_30740.p1, internal, 18522, 18634
-recovered pasa_asmbl_30740.p1, internal, 18877, 18974
-recovered pasa_asmbl_30740.p1, internal, 19234, 19397
Valid prediction for snap_scaffold_23-snap.461-T1
Valid prediction for GlimmerHMM_glimmerT_50649-T1
Valid prediction for snap_scaffold_23-snap.465-T1
Valid prediction for snap_scaffold_23-snap.474-T1
Valid prediction for GlimmerHMM_glimmerT_50662-T1
Valid prediction for GlimmerHMM_glimmerT_50654-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 43123, rend_intergenic: 39116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79287, rend_intergenic: 78412  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151062, rend_intergenic: 148344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 235355
-exon list size: 257


building trellis

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27.4    
27.8    
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29.3    
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32.8    
33.2    
33.6    
34.0    
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34.7    
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36.3    
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38.2    
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39.0    
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39.8    
40.2    
40.5    
40.9    
41.3    
41.7    
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43.6    
44.0    
44.4    
44.8    
45.2    
45.6    
45.9    
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48.3    
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49.0    
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51.4    
51.7    
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56.4    
56.8    
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58.3    
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59.1    
59.5    
59.8    
60.2    
60.6    
61.0    
61.4    
61.8    
62.2    
62.5    
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63.3    
63.7    
64.1    
64.5    
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65.3    
65.6    
66.0    
66.4    
66.8    
67.2    
67.6    
68.0    
68.3    
68.7    
69.1    
69.5    
69.9    
70.3    
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71.0    
71.4    
71.8    
72.2    
72.6    
73.0    
73.4    
73.7    
74.1    
74.5    
74.9    
75.3    
75.7    
76.1    
76.4    
76.8    
77.2    
77.6    
78.0    
78.4    
78.8    
79.2    
79.5    
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80.3    
80.7    
81.1    
81.5    
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82.2    
82.6    
83.0    
83.4    
83.8    
84.2    
84.6    
84.9    
85.3    
85.7    
86.1    
86.5    
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87.3    
87.6    
88.0    
88.4    
88.8    
89.2    
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90.0    
90.3    
90.7    
91.1    
91.5    
91.9    
92.3    
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93.1    
93.4    
93.8    
94.2    
94.6    
95.0    
95.4    
95.8    
96.1    
96.5    
96.9    
97.3    
97.7    
98.1    
98.5    
98.8    
99.2    
99.6    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 43123, rend_intergenic: 39116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79287, rend_intergenic: 78412  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151062, rend_intergenic: 148344  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