-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_298

-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 47, 266
Couldn't classify 7168, 7240
Sorry, prediction snap_scaffold_298-snap.2-T1 fails validation.
(AGG)	 AG	47-266	GT	AGG
(TCT)	 AG	649-731	GT	GTG
(GTA)	 AG	2408-2496	GT	GAG
(CGT)	 AG	2885-2999	GT	AGG
(GCA)	 AG	3396-3581	GT	AGG
(GTC)	 AG	5253-5505	GT	AGG
(GGA)	 AG	6619-6715	GT	AGG
(AGG)	 AG	7168-7240	GT	AGG
-recovered snap_scaffold_298-snap.2-T1, terminal, 2408, 2496
-recovered snap_scaffold_298-snap.2-T1, internal, 47, 266
-recovered snap_scaffold_298-snap.2-T1, internal, 649, 731
-recovered snap_scaffold_298-snap.2-T1, internal, 2408, 2496
-recovered snap_scaffold_298-snap.2-T1, internal, 2885, 2999
-recovered snap_scaffold_298-snap.2-T1, internal, 3396, 3581
-recovered snap_scaffold_298-snap.2-T1, internal, 5253, 5505
-recovered snap_scaffold_298-snap.2-T1, internal, 6619, 6715
-recovered snap_scaffold_298-snap.2-T1, internal, 7168, 7240
Couldn't classify 47, 94
Sorry, prediction GeneMark_model.107221_t fails validation.
(AGG)	 AG	47-94	GT	AGG
(AGG)	 AG	185-261	GT	TGG
(GAG)	 AG	1462-1485	GT	AAG
(GGC)	 AG	1576-1647	GT	GAG
(GGG)	 AG	2215-2365	GT	GGG
(TTG)	 AG	2396-2496	GT	GAG
(CGT)	 AG	2885-3058	GT	GGG
(AGG)	 AG	3083-3094	GT	GGG
(AGG)	 AG	3119-3148	GT	GGG
(AGG)	 AG	3173-3184	GT	GGG
(AGG)	 AG	3209-3220	GT	GGG
(AGG)	 AG	3245-3256	GT	GGG
(AGG)	 AG	3281-3301	GT	GGG
(GAC)	 AG	3331-3339	GT	GGG
(GGT)	 AG	3425-3581	GT	AGG
(GTC)	 AG	5253-5363	GT	CGG
(CCC)	 AG	5398-5462	GT	GGG
(GTG)	 AG	5490-5498	GT	AAG
(GGG)	 AG	5520-5555	GT	GAG
(GGG)	 AG	5583-5675	GT	AGG
(GGG)	 AG	5713-5739	GT	AGG
(AGG)	 AG	5768-5785	GT	AGG
(GTG)	 AG	5809-5812	GA	GAG
-recovered GeneMark_model.107221_t, terminal, 2396, 2496
-recovered GeneMark_model.107221_t, terminal, 5809, 5812
-recovered GeneMark_model.107221_t, internal, 47, 94
-recovered GeneMark_model.107221_t, internal, 185, 261
-recovered GeneMark_model.107221_t, internal, 1462, 1485
-recovered GeneMark_model.107221_t, internal, 1576, 1647
-recovered GeneMark_model.107221_t, internal, 2215, 2365
-recovered GeneMark_model.107221_t, internal, 2396, 2496
-recovered GeneMark_model.107221_t, internal, 2885, 3058
-recovered GeneMark_model.107221_t, internal, 3083, 3094
-recovered GeneMark_model.107221_t, internal, 3119, 3148
-recovered GeneMark_model.107221_t, internal, 3173, 3184
-recovered GeneMark_model.107221_t, internal, 3209, 3220
-recovered GeneMark_model.107221_t, internal, 3245, 3256
-recovered GeneMark_model.107221_t, internal, 3281, 3301
-recovered GeneMark_model.107221_t, internal, 3331, 3339
-recovered GeneMark_model.107221_t, internal, 3425, 3581
-recovered GeneMark_model.107221_t, internal, 5253, 5363
-recovered GeneMark_model.107221_t, internal, 5398, 5462
-recovered GeneMark_model.107221_t, internal, 5490, 5498
-recovered GeneMark_model.107221_t, internal, 5520, 5555
-recovered GeneMark_model.107221_t, internal, 5583, 5675
-recovered GeneMark_model.107221_t, internal, 5713, 5739
-recovered GeneMark_model.107221_t, internal, 5768, 5785
Valid prediction for GeneMark_model.107223_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: -)Couldn't classify 6232, 6397
Couldn't classify 8273, 8405
Sorry, prediction pasa_asmbl_38616.p1 fails validation.
(CTC)	 CC	6232-6397	GT	AGG
(TGA)	 AG	7704-7830	GT	CAG
(GGA)	 AG	8273-8405	GT	AGG
-recovered pasa_asmbl_38616.p1, internal, 7704, 7830
-recovered pasa_asmbl_38616.p1, internal, 8273, 8405
Couldn't classify 1251, 1304
Couldn't classify 3022, 3223
Sorry, prediction pasa_asmbl_38619.p1 fails validation.
(GCT)	 TC	1251-1304	GT	AGG
(GTG)	 AG	1719-1852	GT	ACG
(AGT)	 AG	3022-3223	AG	AGA
-recovered pasa_asmbl_38619.p1, internal, 1719, 1852
Valid prediction for GeneMark_model.107222_t
Couldn't classify 1181, 1304
Couldn't classify 8273, 8405
Sorry, prediction Augustus_model.g40994.t1 fails validation.
(CCC)	 AG	1181-1304	GT	AGG
(GTG)	 AG	1719-1852	GT	ACG
(AGT)	 AG	3022-3224	GT	GAG
(CCC)	 AG	6254-6397	GT	AGG
(TGA)	 AG	7704-7830	GT	CAG
(GGA)	 AG	8273-8405	GT	AGG
-recovered Augustus_model.g40994.t1, internal, 1181, 1304
-recovered Augustus_model.g40994.t1, internal, 1719, 1852
-recovered Augustus_model.g40994.t1, internal, 3022, 3224
-recovered Augustus_model.g40994.t1, internal, 6254, 6397
-recovered Augustus_model.g40994.t1, internal, 7704, 7830
-recovered Augustus_model.g40994.t1, internal, 8273, 8405
Couldn't classify 1181, 1304
Sorry, prediction GlimmerHMM_glimmerT_61655-T1 fails validation.
(CCC)	 AG	1181-1304	GT	AGG
(GTG)	 AG	1719-1852	GT	ACG
(AGT)	 AG	3022-3224	GT	GAG
(CCC)	 AG	6254-6397	GT	AGG
(TGA)	 AG	7704-7830	GT	CAG
(TGG)	 AG	8131-8203	TG	GAT
-recovered GlimmerHMM_glimmerT_61655-T1, terminal, 8131, 8203
-recovered GlimmerHMM_glimmerT_61655-T1, internal, 1181, 1304
-recovered GlimmerHMM_glimmerT_61655-T1, internal, 1719, 1852
-recovered GlimmerHMM_glimmerT_61655-T1, internal, 3022, 3224
-recovered GlimmerHMM_glimmerT_61655-T1, internal, 6254, 6397
-recovered GlimmerHMM_glimmerT_61655-T1, internal, 7704, 7830
Couldn't classify 1181, 1304
Couldn't classify 8273, 8405
Sorry, prediction snap_scaffold_298-snap.1-T1 fails validation.
(CCC)	 AG	1181-1304	GT	AGG
(GTG)	 AG	1719-1852	GT	ACG
(AGT)	 AG	3022-3224	GT	GAG
(CCC)	 AG	6254-6397	GT	AGG
(TGC)	 AG	6653-6670	GT	GGG
(TGA)	 AG	7704-7830	GT	CAG
(GGA)	 AG	8273-8405	GT	AGG
-recovered snap_scaffold_298-snap.1-T1, internal, 1181, 1304
-recovered snap_scaffold_298-snap.1-T1, internal, 1719, 1852
-recovered snap_scaffold_298-snap.1-T1, internal, 3022, 3224
-recovered snap_scaffold_298-snap.1-T1, internal, 6254, 6397
-recovered snap_scaffold_298-snap.1-T1, internal, 6653, 6670
-recovered snap_scaffold_298-snap.1-T1, internal, 7704, 7830
-recovered snap_scaffold_298-snap.1-T1, internal, 8273, 8405
Valid prediction for CodingQuarry_transcript_43696-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7265, rend_intergenic: 47  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8445
-exon list size: 84


building trellis

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90.7    
91.9    
93.0    
94.2    
95.3    
96.5    
97.7    
98.8    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 7265, rend_intergenic: 47  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