-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_145

-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: +)Couldn't classify 12577, 12591
Sorry, prediction GeneMark_model.106728_t fails validation.
(ATG)	 GG	8294-8305	GT	CTG
(GAT)	 AG	8737-8826	GT	ATG
(AGG)	 AG	8990-9054	GC	ATG
(ATG)	 AG	9089-9289	GT	GAG
(AGA)	 AG	9344-9397	GT	GAG
(AGG)	 AG	9421-9459	GT	AGG
(ACA)	 AG	9545-9583	GT	GGG
(GGG)	 AG	9683-9688	GT	GAG
(GTG)	 AG	9926-9974	GT	TAG
(AGT)	 AG	10036-10106	GT	AGG
(AGG)	 AG	12486-12506	GT	CAG
(GGG)	 AG	12532-12552	GT	GGG
(GGG)	 AG	12577-12591	GC	GGG
-recovered GeneMark_model.106728_t, initial, 8294, 8305
-recovered GeneMark_model.106728_t, initial, 9089, 9289
-recovered GeneMark_model.106728_t, internal, 8737, 8826
-recovered GeneMark_model.106728_t, internal, 8990, 9054
-recovered GeneMark_model.106728_t, internal, 9089, 9289
-recovered GeneMark_model.106728_t, internal, 9344, 9397
-recovered GeneMark_model.106728_t, internal, 9421, 9459
-recovered GeneMark_model.106728_t, internal, 9545, 9583
-recovered GeneMark_model.106728_t, internal, 9683, 9688
-recovered GeneMark_model.106728_t, internal, 9926, 9974
-recovered GeneMark_model.106728_t, internal, 10036, 10106
-recovered GeneMark_model.106728_t, internal, 12486, 12506
-recovered GeneMark_model.106728_t, internal, 12532, 12552
-recovered GeneMark_model.106728_t, internal, 12577, 12591
Couldn't classify 4908, 5066
Sorry, prediction snap_scaffold_145-snap.3-T1 fails validation.
(CTC)	 AG	4908-5066	GT	GGG
(AGC)	 AG	7027-7147	GT	GTG
(GAT)	 AG	8737-8886	TA	AGT
-recovered snap_scaffold_145-snap.3-T1, terminal, 8737, 8886
-recovered snap_scaffold_145-snap.3-T1, internal, 4908, 5066
-recovered snap_scaffold_145-snap.3-T1, internal, 7027, 7147
Valid prediction for snap_scaffold_145-snap.4-T1
Valid prediction for GlimmerHMM_glimmerT_61385-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: -)Couldn't classify 9750, 9787
Couldn't classify 11795, 11933
Sorry, prediction pasa_asmbl_13871.p1 fails validation.
(GGA)	 GT	9750-9787	GT	AGG
(GTA)	 AG	10349-10558	GT	AAG
(GAA)	 AG	11795-11933	TG	TGT
-recovered pasa_asmbl_13871.p1, internal, 10349, 10558
Valid prediction for GlimmerHMM_glimmerT_61382-T1
Couldn't classify 11795, 11930
Sorry, prediction snap_scaffold_145-snap.1-T1 fails validation.
(ATG)	 AG	9815-10058	GT	AGG
(GAA)	 AG	10089-10324	GT	CTG
(CAT)	 AG	10383-10558	GT	AAG
(GAA)	 AG	11795-11930	GT	CAG
-recovered snap_scaffold_145-snap.1-T1, initial, 9815, 10058
-recovered snap_scaffold_145-snap.1-T1, internal, 9815, 10058
-recovered snap_scaffold_145-snap.1-T1, internal, 10089, 10324
-recovered snap_scaffold_145-snap.1-T1, internal, 10383, 10558
-recovered snap_scaffold_145-snap.1-T1, internal, 11795, 11930
Couldn't classify 10349, 10558
Sorry, prediction GeneMark_model.106727_t fails validation.
(ATG)	 TA	5151-5153	GT	TGG
(GAA)	 AG	5412-5592	GT	GGG
(AAC)	 AG	5808-5836	GT	GGG
(GAG)	 AG	7519-7690	GT	TGG
(GCT)	 AG	7881-7900	GT	TGG
(CGC)	 AG	8347-8506	GT	AGG
(GTG)	 AG	8637-8758	GT	AGG
(GAC)	 AG	9300-9407	GT	AGG
(GGC)	 AG	9681-9787	GT	AGG
(ATG)	 AG	9815-9916	GT	GAG
(AGG)	 AG	9944-9961	GT	GGG
(GTG)	 AG	9990-10022	GT	AGG
(GGG)	 AG	10048-10074	GT	GAG
(AGG)	 AG	10112-10249	GC	CAG
(GTA)	 AG	10349-10558	GT	AAG
-recovered GeneMark_model.106727_t, initial, 5151, 5153
-recovered GeneMark_model.106727_t, initial, 9815, 9916
-recovered GeneMark_model.106727_t, internal, 5412, 5592
-recovered GeneMark_model.106727_t, internal, 5808, 5836
-recovered GeneMark_model.106727_t, internal, 7519, 7690
-recovered GeneMark_model.106727_t, internal, 7881, 7900
-recovered GeneMark_model.106727_t, internal, 8347, 8506
-recovered GeneMark_model.106727_t, internal, 8637, 8758
-recovered GeneMark_model.106727_t, internal, 9300, 9407
-recovered GeneMark_model.106727_t, internal, 9681, 9787
-recovered GeneMark_model.106727_t, internal, 9815, 9916
-recovered GeneMark_model.106727_t, internal, 9944, 9961
-recovered GeneMark_model.106727_t, internal, 9990, 10022
-recovered GeneMark_model.106727_t, internal, 10048, 10074
-recovered GeneMark_model.106727_t, internal, 10112, 10249
-recovered GeneMark_model.106727_t, internal, 10349, 10558
Valid prediction for GlimmerHMM_glimmerT_61383-T1
Couldn't classify 11795, 11934
Sorry, prediction Augustus_model.g40827.t1 fails validation.
(ATG)	 AT	3678-3878	GT	TGG
(GAA)	 AG	5412-5490	GT	TGG
(GCC)	 AG	6334-6443	GT	CTG
(GAG)	 AG	7519-7690	GT	TGG
(CGC)	 AG	8347-8418	GT	AGG
(GTG)	 AG	8637-8758	GT	AGG
(GAC)	 AG	9300-9407	GT	AGG
(GGC)	 AG	9681-9787	GT	AGG
(GTA)	 AG	10349-10558	GT	AAG
(GAA)	 AG	11795-11934	GT	GTG
-recovered Augustus_model.g40827.t1, initial, 3678, 3878
-recovered Augustus_model.g40827.t1, internal, 5412, 5490
-recovered Augustus_model.g40827.t1, internal, 6334, 6443
-recovered Augustus_model.g40827.t1, internal, 7519, 7690
-recovered Augustus_model.g40827.t1, internal, 8347, 8418
-recovered Augustus_model.g40827.t1, internal, 8637, 8758
-recovered Augustus_model.g40827.t1, internal, 9300, 9407
-recovered Augustus_model.g40827.t1, internal, 9681, 9787
-recovered Augustus_model.g40827.t1, internal, 10349, 10558
-recovered Augustus_model.g40827.t1, internal, 11795, 11934
Couldn't classify 1449, 1528
Sorry, prediction snap_scaffold_145-snap.2-T1 fails validation.
(AGT)	 AG	1449-1528	GT	GGG
(TTT)	 AG	3665-3878	GT	TGG
(GAA)	 AG	5412-5592	GT	GGG
(GCC)	 AG	6334-6443	GT	CTG
(GAG)	 AG	7519-7690	GT	TGG
(GTC)	 AG	8375-8506	GT	AGG
(GTG)	 AG	8637-8713	GT	AGG
(GAC)	 AG	9300-9407	GT	AGG
(GGC)	 AG	9681-9791	GG	GAG
-recovered snap_scaffold_145-snap.2-T1, terminal, 9681, 9791
-recovered snap_scaffold_145-snap.2-T1, internal, 1449, 1528
-recovered snap_scaffold_145-snap.2-T1, internal, 3665, 3878
-recovered snap_scaffold_145-snap.2-T1, internal, 5412, 5592
-recovered snap_scaffold_145-snap.2-T1, internal, 6334, 6443
-recovered snap_scaffold_145-snap.2-T1, internal, 7519, 7690
-recovered snap_scaffold_145-snap.2-T1, internal, 8375, 8506
-recovered snap_scaffold_145-snap.2-T1, internal, 8637, 8713
-recovered snap_scaffold_145-snap.2-T1, internal, 9300, 9407
Valid prediction for GlimmerHMM_glimmerT_61384-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11163, rend_intergenic: 4908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 12611
-exon list size: 92


building trellis

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50.0    
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55.3    
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86.2    
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88.3    
89.4    
90.4    
91.5    
92.6    
93.6    
94.7    
95.7    
96.8    
97.9    
98.9    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 11163, rend_intergenic: 4908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support