-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_288

-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 Augustus_model.g40984.t1
Valid prediction for GeneMark_model.107193_t
Couldn't classify 5748, 5939
Sorry, prediction snap_scaffold_288-snap.3-T1 fails validation.
(ATG)	 AC	1945-1969	GT	AGG
(AGA)	 AG	4173-4317	GT	GGG
(ACC)	 AG	5527-5626	GT	GGG
(ACA)	 AG	5748-5939	GT	AGG
-recovered snap_scaffold_288-snap.3-T1, initial, 1945, 1969
-recovered snap_scaffold_288-snap.3-T1, internal, 4173, 4317
-recovered snap_scaffold_288-snap.3-T1, internal, 5527, 5626
-recovered snap_scaffold_288-snap.3-T1, internal, 5748, 5939
Couldn't classify 537, 620
Sorry, prediction snap_scaffold_288-snap.2-T1 fails validation.
(ATC)	 AG	537-620	GT	CCG
(CGC)	 AG	652-760	GT	AGG
(GAC)	 AG	1103-1400	GT	ATG
(GAC)	 AG	1455-1863	TA	AAT
-recovered snap_scaffold_288-snap.2-T1, terminal, 1455, 1863
-recovered snap_scaffold_288-snap.2-T1, internal, 537, 620
-recovered snap_scaffold_288-snap.2-T1, internal, 652, 760
-recovered snap_scaffold_288-snap.2-T1, internal, 1103, 1400
Valid prediction for GeneMark_model.107192_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 GlimmerHMM_glimmerT_61641-T1
Couldn't classify 31, 167
Sorry, prediction snap_scaffold_288-snap.4-T1 fails validation.
(GAA)	 AG	31-167	GT	AGG
(TAC)	 AG	633-766	GT	CTG
(GGT)	 AG	2646-2777	GT	AGG
(ACG)	 AG	2915-3055	GT	AGG
(GAC)	 AG	4400-4523	AC	AGA
-recovered snap_scaffold_288-snap.4-T1, terminal, 2646, 2777
-recovered snap_scaffold_288-snap.4-T1, terminal, 4400, 4523
-recovered snap_scaffold_288-snap.4-T1, internal, 31, 167
-recovered snap_scaffold_288-snap.4-T1, internal, 633, 766
-recovered snap_scaffold_288-snap.4-T1, internal, 2646, 2777
-recovered snap_scaffold_288-snap.4-T1, internal, 2915, 3055
Couldn't classify 7820, 8205
Sorry, prediction snap_scaffold_288-snap.1-T1 fails validation.
(ATG)	 AG	4798-4807	GT	CGG
(TCC)	 AG	7107-7411	GT	AGG
(GTG)	 AG	7820-8205	GT	AGG
-recovered snap_scaffold_288-snap.1-T1, initial, 4798, 4807
-recovered snap_scaffold_288-snap.1-T1, internal, 4798, 4807
-recovered snap_scaffold_288-snap.1-T1, internal, 7107, 7411
-recovered snap_scaffold_288-snap.1-T1, internal, 7820, 8205
Couldn't classify 24, 35
Sorry, prediction GeneMark_model.107194_t fails validation.
(GTG)	 AG	24-35	GT	AGG
(GTG)	 AG	60-71	GT	AGG
(GTG)	 AG	96-107	GT	AGG
(GCT)	 AG	668-691	GT	AAG
(GTT)	 AG	716-739	GT	AGG
(GCT)	 AG	868-891	GT	AGG
(GTC)	 AG	916-937	AG	AGA
-recovered GeneMark_model.107194_t, terminal, 916, 937
-recovered GeneMark_model.107194_t, internal, 24, 35
-recovered GeneMark_model.107194_t, internal, 60, 71
-recovered GeneMark_model.107194_t, internal, 96, 107
-recovered GeneMark_model.107194_t, internal, 668, 691
-recovered GeneMark_model.107194_t, internal, 716, 739
-recovered GeneMark_model.107194_t, internal, 868, 891
Couldn't classify 7820, 8205
Sorry, prediction GeneMark_model.107191_t fails validation.
(ATG)	 AG	7343-7411	GT	AGG
(GTG)	 AG	7820-8205	GT	AGG
-recovered GeneMark_model.107191_t, initial, 7343, 7411
-recovered GeneMark_model.107191_t, internal, 7343, 7411
-recovered GeneMark_model.107191_t, internal, 7820, 8205
Couldn't classify 7820, 8205
Sorry, prediction Augustus_model.g40983.t1 fails validation.
(ATG)	 GA	6552-6654	GT	ACG
(TCC)	 AG	7107-7411	GT	AGG
(GTG)	 AG	7820-8205	GT	AGG
-recovered Augustus_model.g40983.t1, initial, 6552, 6654
-recovered Augustus_model.g40983.t1, internal, 7107, 7411
-recovered Augustus_model.g40983.t1, internal, 7820, 8205

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3765, rend_intergenic: 537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5939, rend_intergenic: 4040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8562
-exon list size: 63


building trellis

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16.9    
18.5    
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35.4    
36.9    
38.5    
40.0    
41.5    
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44.6    
46.2    
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56.9    
58.5    
60.0    
61.5    
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69.2    
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72.3    
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75.4    
76.9    
78.5    
80.0    
81.5    
83.1    
84.6    
86.2    
87.7    
89.2    
90.8    
92.3    
93.8    
95.4    
96.9    
98.5    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 3765, rend_intergenic: 537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5939, rend_intergenic: 4040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support