-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1125

-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: +)
-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 351, 471
Sorry, prediction GeneMark_model.108931_t fails validation.
(GCA)	 AG	351-471	GT	AGG
(TGG)	 AG	720-807	GT	TGG
(GGG)	 AG	843-947	GT	AGG
(GTG)	 AG	1340-1470	GT	AGG
(CGC)	 AG	1669-1823	GT	AGG
(TCA)	 AG	1852-1877	CT	GAC
-recovered GeneMark_model.108931_t, terminal, 1852, 1877
-recovered GeneMark_model.108931_t, internal, 351, 471
-recovered GeneMark_model.108931_t, internal, 720, 807
-recovered GeneMark_model.108931_t, internal, 843, 947
-recovered GeneMark_model.108931_t, internal, 1340, 1470
-recovered GeneMark_model.108931_t, internal, 1669, 1823
Couldn't classify 351, 471
Sorry, prediction GlimmerHMM_glimmerT_62485-T1 fails validation.
(GCA)	 AG	351-471	GT	AGG
(TGG)	 AG	720-807	GT	TGG
(GGG)	 AG	843-947	GT	AGG
(GTG)	 AG	1340-1470	GT	AGG
(CGC)	 AG	1669-1823	GT	AGG
(GTA)	 AG	2139-2304	GT	AGG
(GAA)	 AG	2718-2898	GT	GAG
-recovered GlimmerHMM_glimmerT_62485-T1, terminal, 2718, 2898
-recovered GlimmerHMM_glimmerT_62485-T1, internal, 351, 471
-recovered GlimmerHMM_glimmerT_62485-T1, internal, 720, 807
-recovered GlimmerHMM_glimmerT_62485-T1, internal, 843, 947
-recovered GlimmerHMM_glimmerT_62485-T1, internal, 1340, 1470
-recovered GlimmerHMM_glimmerT_62485-T1, internal, 1669, 1823
-recovered GlimmerHMM_glimmerT_62485-T1, internal, 2139, 2304
-recovered GlimmerHMM_glimmerT_62485-T1, internal, 2718, 2898
Couldn't classify 334, 433
Couldn't classify 2718, 2894
Sorry, prediction Augustus_model.g41541.t1 fails validation.
(GTG)	 AG	334-433	GT	AGG
(AAC)	 AG	780-947	GT	AGG
(GTG)	 AG	1340-1470	GT	AGG
(CGC)	 AG	1669-1823	GT	AGG
(GTA)	 AG	2139-2304	GT	AGG
(GAA)	 AG	2718-2894	GT	AAG
-recovered Augustus_model.g41541.t1, internal, 334, 433
-recovered Augustus_model.g41541.t1, internal, 780, 947
-recovered Augustus_model.g41541.t1, internal, 1340, 1470
-recovered Augustus_model.g41541.t1, internal, 1669, 1823
-recovered Augustus_model.g41541.t1, internal, 2139, 2304
-recovered Augustus_model.g41541.t1, internal, 2718, 2894
Couldn't classify 2718, 2894
Sorry, prediction GeneMark_model.108929_t fails validation.
(ATG)	 GT	2141-2304	GT	AGG
(GAA)	 AG	2718-2894	GT	AAG
-recovered GeneMark_model.108929_t, initial, 2141, 2304
-recovered GeneMark_model.108929_t, internal, 2718, 2894
Couldn't classify 351, 471
Couldn't classify 2718, 2894
Sorry, prediction snap_scaffold_1125-snap.1-T1 fails validation.
(GCA)	 AG	351-471	GT	AGG
(TGG)	 AG	720-825	GT	CTG
(GGG)	 AG	843-947	GT	AGG
(GTG)	 AG	1340-1470	GT	AGG
(CGC)	 AG	1669-1823	GT	AGG
(GTA)	 AG	2139-2304	GT	AGG
(GAA)	 AG	2718-2894	GT	AAG
-recovered snap_scaffold_1125-snap.1-T1, internal, 351, 471
-recovered snap_scaffold_1125-snap.1-T1, internal, 720, 825
-recovered snap_scaffold_1125-snap.1-T1, internal, 843, 947
-recovered snap_scaffold_1125-snap.1-T1, internal, 1340, 1470
-recovered snap_scaffold_1125-snap.1-T1, internal, 1669, 1823
-recovered snap_scaffold_1125-snap.1-T1, internal, 2139, 2304
-recovered snap_scaffold_1125-snap.1-T1, internal, 2718, 2894

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 3222
-exon list size: 16


building trellis

5.6    
11.1    
16.7    
22.2    
27.8    
33.3    
38.9    
44.4    
50.0    
55.6    
61.1    
66.7    
72.2    
77.8    
83.3    
88.9    
94.4    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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