-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1014

-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 562, 702
Sorry, prediction GeneMark_model.108759_t fails validation.
(AGA)	 AG	562-702	GC	GAG
(AGA)	 AG	781-789	GT	GAG
(ACA)	 AG	815-854	AG	AGA
-recovered GeneMark_model.108759_t, terminal, 781, 789
-recovered GeneMark_model.108759_t, terminal, 815, 854
-recovered GeneMark_model.108759_t, internal, 562, 702
-recovered GeneMark_model.108759_t, internal, 781, 789

-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 39, 136
Sorry, prediction GeneMark_model.108760_t fails validation.
(AGA)	 AG	39-136	GT	AGG
(GTT)	 AG	320-473	GT	AGG
(AGG)	 AG	783-926	GT	AGG
(ACA)	 AG	1753-1832	GT	AGG
(AAC)	 AG	1963-2075	GT	AGG
(GCT)	 AG	2534-2678	TC	AGT
-recovered GeneMark_model.108760_t, terminal, 2534, 2678
-recovered GeneMark_model.108760_t, internal, 39, 136
-recovered GeneMark_model.108760_t, internal, 320, 473
-recovered GeneMark_model.108760_t, internal, 783, 926
-recovered GeneMark_model.108760_t, internal, 1753, 1832
-recovered GeneMark_model.108760_t, internal, 1963, 2075
Valid prediction for GlimmerHMM_glimmerT_62408-T1
Couldn't classify 29, 136
Couldn't classify 2390, 2573
Sorry, prediction snap_scaffold_1014-snap.1-T1 fails validation.
(GTG)	 AG	29-136	GT	AGG
(GTT)	 AG	320-473	GT	AGG
(AGG)	 AG	783-926	GT	AGG
(AGA)	 AG	1183-1227	GT	AGG
(ACA)	 AG	1753-1832	GT	AGG
(AAC)	 AG	1963-2075	GT	AGG
(GTG)	 AG	2390-2573	GT	TTG
-recovered snap_scaffold_1014-snap.1-T1, internal, 29, 136
-recovered snap_scaffold_1014-snap.1-T1, internal, 320, 473
-recovered snap_scaffold_1014-snap.1-T1, internal, 783, 926
-recovered snap_scaffold_1014-snap.1-T1, internal, 1183, 1227
-recovered snap_scaffold_1014-snap.1-T1, internal, 1753, 1832
-recovered snap_scaffold_1014-snap.1-T1, internal, 1963, 2075
-recovered snap_scaffold_1014-snap.1-T1, internal, 2390, 2573
Couldn't classify 2390, 2573
Sorry, prediction Augustus_model.g41483.t1 fails validation.
(ATG)	 TG	47-136	GT	AGG
(GTT)	 AG	320-473	GT	AGG
(AGG)	 AG	783-926	GT	AGG
(AGA)	 AG	1183-1227	GT	AGG
(ACA)	 AG	1753-1832	GT	AGG
(AAC)	 AG	1963-2075	GT	AGG
(GTG)	 AG	2390-2573	GT	TTG
-recovered Augustus_model.g41483.t1, initial, 47, 136
-recovered Augustus_model.g41483.t1, internal, 320, 473
-recovered Augustus_model.g41483.t1, internal, 783, 926
-recovered Augustus_model.g41483.t1, internal, 1183, 1227
-recovered Augustus_model.g41483.t1, internal, 1753, 1832
-recovered Augustus_model.g41483.t1, internal, 1963, 2075
-recovered Augustus_model.g41483.t1, internal, 2390, 2573
Couldn't classify 887, 926
Couldn't classify 2390, 2561
Sorry, prediction pasa_asmbl_5185.p1 fails validation.
(AAA)	 AC	887-926	GT	AGG
(AGA)	 AG	1183-1227	GT	AGG
(ACA)	 AG	1753-1832	GT	AGG
(AAC)	 AG	1963-2075	GT	AGG
(GTG)	 AG	2390-2561	GA	ACG
-recovered pasa_asmbl_5185.p1, internal, 1183, 1227
-recovered pasa_asmbl_5185.p1, internal, 1753, 1832
-recovered pasa_asmbl_5185.p1, internal, 1963, 2075

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

-building trellis in range 1 - 3587
-exon list size: 22


building trellis

4.2    
8.3    
12.5    
16.7    
20.8    
25.0    
29.2    
33.3    
37.5    
41.7    
45.8    
50.0    
54.2    
58.3    
62.5    
66.7    
70.8    
75.0    
79.2    
83.3    
87.5    
91.7    
95.8    
-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