-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_268

-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 79, 93
Sorry, prediction GeneMark_model.107133_t fails validation.
(GAG)	 AG	79-93	GT	GGG
(GAG)	 AG	117-125	GT	GGG
(AGG)	 AG	151-156	GT	GGG
(GAG)	 AG	186-194	GT	GGG
(GAG)	 AG	224-232	GT	GGG
(GAG)	 AG	262-270	GT	GGG
(TGT)	 AG	298-330	GT	GGG
(GAG)	 AG	362-385	GT	GAG
(GAG)	 AG	411-485	GT	AGG
(GAG)	 AG	509-616	GT	TGG
(GGG)	 AG	665-718	GC	ACG
(AAA)	 AG	751-932	GT	GGG
(TCT)	 AG	971-996	GT	CAG
(TCG)	 AG	1028-1116	GT	AGG
(GGT)	 AG	1174-1215	GT	AGG
(GGA)	 AG	1238-1279	GT	GAG
(GGA)	 AG	1302-1316	GT	CGG
(GGG)	 AG	1345-1350	GT	GAG
(TGG)	 AG	1376-1387	GT	GGG
(AGT)	 AG	1416-1436	GT	GGG
(GAG)	 AG	1459-1464	GT	GAG
(TGA)	 AG	1490-1499	GG	GAG
-recovered GeneMark_model.107133_t, terminal, 1490, 1499
-recovered GeneMark_model.107133_t, internal, 79, 93
-recovered GeneMark_model.107133_t, internal, 117, 125
-recovered GeneMark_model.107133_t, internal, 151, 156
-recovered GeneMark_model.107133_t, internal, 186, 194
-recovered GeneMark_model.107133_t, internal, 224, 232
-recovered GeneMark_model.107133_t, internal, 262, 270
-recovered GeneMark_model.107133_t, internal, 298, 330
-recovered GeneMark_model.107133_t, internal, 362, 385
-recovered GeneMark_model.107133_t, internal, 411, 485
-recovered GeneMark_model.107133_t, internal, 509, 616
-recovered GeneMark_model.107133_t, internal, 665, 718
-recovered GeneMark_model.107133_t, internal, 751, 932
-recovered GeneMark_model.107133_t, internal, 971, 996
-recovered GeneMark_model.107133_t, internal, 1028, 1116
-recovered GeneMark_model.107133_t, internal, 1174, 1215
-recovered GeneMark_model.107133_t, internal, 1238, 1279
-recovered GeneMark_model.107133_t, internal, 1302, 1316
-recovered GeneMark_model.107133_t, internal, 1345, 1350
-recovered GeneMark_model.107133_t, internal, 1376, 1387
-recovered GeneMark_model.107133_t, internal, 1416, 1436
-recovered GeneMark_model.107133_t, internal, 1459, 1464
Couldn't classify 63, 524
Sorry, prediction snap_scaffold_268-snap.2-T1 fails validation.
(GGT)	 AG	63-524	GT	CAG
(GCT)	 AG	1564-1907	GT	CGG
(TGT)	 AG	2470-2602	GT	GGG
(GCA)	 AG	5586-5678	GT	AGG
(GAG)	 AG	5848-5910	AG	AGA
-recovered snap_scaffold_268-snap.2-T1, terminal, 5848, 5910
-recovered snap_scaffold_268-snap.2-T1, internal, 63, 524
-recovered snap_scaffold_268-snap.2-T1, internal, 1564, 1907
-recovered snap_scaffold_268-snap.2-T1, internal, 2470, 2602
-recovered snap_scaffold_268-snap.2-T1, internal, 5586, 5678
Valid prediction for GeneMark_model.107135_t
Couldn't classify 8531, 8651
Sorry, prediction snap_scaffold_268-snap.3-T1 fails validation.
(ATG)	 GG	7397-7629	GT	GGG
(CTT)	 AG	8531-8651	GT	CTG
-recovered snap_scaffold_268-snap.3-T1, initial, 7397, 7629
-recovered snap_scaffold_268-snap.3-T1, internal, 8531, 8651

-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 100, 240
Couldn't classify 8688, 8755
Sorry, prediction Augustus_model.g40963.t1 fails validation.
(ATC)	 AG	100-240	GT	AGG
(GTG)	 AG	973-1252	GT	CGG
(AGG)	 AG	2918-3132	GT	AGG
(AGC)	 AG	5936-6062	GT	AGG
(GGT)	 AG	6143-6274	GT	AGG
(CTC)	 AG	6798-6940	GT	AGG
(GAC)	 AG	7067-7136	GT	CAG
(GCA)	 AG	7617-7739	GT	CGG
(AGG)	 AG	8117-8238	GT	TGG
(GCC)	 AG	8688-8755		GC
-recovered Augustus_model.g40963.t1, internal, 100, 240
-recovered Augustus_model.g40963.t1, internal, 973, 1252
-recovered Augustus_model.g40963.t1, internal, 2918, 3132
-recovered Augustus_model.g40963.t1, internal, 5936, 6062
-recovered Augustus_model.g40963.t1, internal, 6143, 6274
-recovered Augustus_model.g40963.t1, internal, 6798, 6940
-recovered Augustus_model.g40963.t1, internal, 7067, 7136
-recovered Augustus_model.g40963.t1, internal, 7617, 7739
-recovered Augustus_model.g40963.t1, internal, 8117, 8238
Couldn't classify 100, 240
Sorry, prediction GeneMark_model.107136_t fails validation.
(ATC)	 AG	100-240	GT	AGG
(GAC)	 AG	694-741	AT	AGA
-recovered GeneMark_model.107136_t, terminal, 694, 741
-recovered GeneMark_model.107136_t, internal, 100, 240
Valid prediction for GlimmerHMM_glimmerT_61607-T1
Valid prediction for GeneMark_model.107134_t
Couldn't classify 100, 240
Sorry, prediction GlimmerHMM_glimmerT_61609-T1 fails validation.
(ATC)	 AG	100-240	GT	AGG
(GTG)	 AG	973-1252	GT	CGG
(AGG)	 AG	2918-3132	GT	AGG
(GCC)	 AG	3329-3394	AC	AAA
-recovered GlimmerHMM_glimmerT_61609-T1, terminal, 3329, 3394
-recovered GlimmerHMM_glimmerT_61609-T1, internal, 100, 240
-recovered GlimmerHMM_glimmerT_61609-T1, internal, 973, 1252
-recovered GlimmerHMM_glimmerT_61609-T1, internal, 2918, 3132
Valid prediction for GlimmerHMM_glimmerT_61608-T1
Couldn't classify 100, 240
Couldn't classify 8688, 8740
Sorry, prediction snap_scaffold_268-snap.1-T1 fails validation.
(ATC)	 AG	100-240	GT	AGG
(GTG)	 AG	973-1252	GT	CGG
(AGG)	 AG	2918-3132	GT	AGG
(AGC)	 AG	5936-6062	GT	AGG
(GGT)	 AG	6143-6274	GT	AGG
(CTC)	 AG	6844-6940	GT	AGG
(GAC)	 AG	7067-7136	GT	CAG
(GCC)	 AG	7154-7238	GT	GGG
(GCA)	 AG	7617-7739	GT	CGG
(AGG)	 AG	8117-8238	GT	TGG
(GCC)	 AG	8688-8740	GT	GAG
-recovered snap_scaffold_268-snap.1-T1, internal, 100, 240
-recovered snap_scaffold_268-snap.1-T1, internal, 973, 1252
-recovered snap_scaffold_268-snap.1-T1, internal, 2918, 3132
-recovered snap_scaffold_268-snap.1-T1, internal, 5936, 6062
-recovered snap_scaffold_268-snap.1-T1, internal, 6143, 6274
-recovered snap_scaffold_268-snap.1-T1, internal, 6844, 6940
-recovered snap_scaffold_268-snap.1-T1, internal, 7067, 7136
-recovered snap_scaffold_268-snap.1-T1, internal, 7154, 7238
-recovered snap_scaffold_268-snap.1-T1, internal, 7617, 7739
-recovered snap_scaffold_268-snap.1-T1, internal, 8117, 8238
-recovered snap_scaffold_268-snap.1-T1, internal, 8688, 8740

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8656, rend_intergenic: 63  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8755
-exon list size: 98


building trellis

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-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 8656, rend_intergenic: 63  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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