-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_614

-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 5055, 5128
Sorry, prediction HiQ_model.g41243.t1 fails validation.
(ATG)	 TA	1121-1249	GT	AGG
(GAG)	 AG	1368-1413	GT	CGG
(AGG)	 AG	1500-1591	GT	TGG
(GGA)	 AG	1761-1804	GT	ATG
(AGA)	 AG	1995-2055	GT	AGG
(GGA)	 AG	2563-2610	GT	CAG
(ATT)	 AG	2711-2776	GT	CGG
(CTT)	 AG	2940-3010	GT	AGG
(GTT)	 AG	3103-3189	GC	AAG
(CGG)	 AG	3367-3535	GT	ACG
(GCT)	 AG	4048-4169	GT	AGG
(TGA)	 AG	4353-4496	GT	AGG
(GAG)	 AG	4734-4821	GT	CAG
(GTA)	 AG	5055-5128	GT	TGG
-recovered HiQ_model.g41243.t1, initial, 1121, 1249
-recovered HiQ_model.g41243.t1, internal, 1368, 1413
-recovered HiQ_model.g41243.t1, internal, 1500, 1591
-recovered HiQ_model.g41243.t1, internal, 1761, 1804
-recovered HiQ_model.g41243.t1, internal, 1995, 2055
-recovered HiQ_model.g41243.t1, internal, 2563, 2610
-recovered HiQ_model.g41243.t1, internal, 2711, 2776
-recovered HiQ_model.g41243.t1, internal, 2940, 3010
-recovered HiQ_model.g41243.t1, internal, 3103, 3189
-recovered HiQ_model.g41243.t1, internal, 3367, 3535
-recovered HiQ_model.g41243.t1, internal, 4048, 4169
-recovered HiQ_model.g41243.t1, internal, 4353, 4496
-recovered HiQ_model.g41243.t1, internal, 4734, 4821
-recovered HiQ_model.g41243.t1, internal, 5055, 5128
Couldn't classify 1142, 1249
Couldn't classify 5055, 5129
Sorry, prediction pasa_asmbl_49406.p1 fails validation.
(AGA)	 GG	1142-1249	GT	AGG
(GAG)	 AG	1368-1413	GT	CGG
(AGG)	 AG	1500-1591	GT	TGG
(GGA)	 AG	1761-1804	GT	ATG
(AGA)	 AG	1995-2055	GT	AGG
(GGA)	 AG	2563-2610	GT	CAG
(ATT)	 AG	2711-2776	GT	CGG
(CTT)	 AG	2940-3010	GT	AGG
(GTT)	 AG	3103-3189	GC	AAG
(CGG)	 AG	3367-3535	GT	ACG
(GCT)	 AG	4048-4169	GT	AGG
(TGA)	 AG	4353-4496	GT	AGG
(GAG)	 AG	4734-4821	GT	CAG
(GTA)	 AG	5055-5129	TA	GGT
-recovered pasa_asmbl_49406.p1, internal, 1368, 1413
-recovered pasa_asmbl_49406.p1, internal, 1500, 1591
-recovered pasa_asmbl_49406.p1, internal, 1761, 1804
-recovered pasa_asmbl_49406.p1, internal, 1995, 2055
-recovered pasa_asmbl_49406.p1, internal, 2563, 2610
-recovered pasa_asmbl_49406.p1, internal, 2711, 2776
-recovered pasa_asmbl_49406.p1, internal, 2940, 3010
-recovered pasa_asmbl_49406.p1, internal, 3103, 3189
-recovered pasa_asmbl_49406.p1, internal, 3367, 3535
-recovered pasa_asmbl_49406.p1, internal, 4048, 4169
-recovered pasa_asmbl_49406.p1, internal, 4353, 4496
-recovered pasa_asmbl_49406.p1, internal, 4734, 4821
Couldn't classify 4006, 4169
Couldn't classify 5055, 5129
Sorry, prediction pasa_asmbl_49408.p1 fails validation.
(CTC)	 GG	4006-4169	GT	AGG
(TGA)	 AG	4353-4496	GT	AGG
(GAG)	 AG	4734-4821	GT	CAG
(GTA)	 AG	5055-5129	TA	GGT
-recovered pasa_asmbl_49408.p1, internal, 4353, 4496
-recovered pasa_asmbl_49408.p1, internal, 4734, 4821
Valid prediction for snap_scaffold_614-snap.2-T1
Couldn't classify 4792, 4889
Sorry, prediction GeneMark_model.108044_t fails validation.
(ATG)	 CG	1178-1249	GT	AGG
(GAG)	 AG	1368-1413	GT	CGG
(AAA)	 AG	1997-2055	GT	AGG
(GGA)	 AG	2563-2610	GT	CAG
(CTT)	 AG	2940-3010	GT	AGG
(CGG)	 AG	3367-3511	GT	AGG
(GCT)	 AG	4048-4169	GT	AGG
(TGA)	 AG	4353-4496	GT	AGG
(GGA)	 AG	4737-4752	GT	AGG
(GAG)	 AG	4792-4889	GT	GTG
-recovered GeneMark_model.108044_t, initial, 1178, 1249
-recovered GeneMark_model.108044_t, internal, 1368, 1413
-recovered GeneMark_model.108044_t, internal, 1997, 2055
-recovered GeneMark_model.108044_t, internal, 2563, 2610
-recovered GeneMark_model.108044_t, internal, 2940, 3010
-recovered GeneMark_model.108044_t, internal, 3367, 3511
-recovered GeneMark_model.108044_t, internal, 4048, 4169
-recovered GeneMark_model.108044_t, internal, 4353, 4496
-recovered GeneMark_model.108044_t, internal, 4737, 4752
-recovered GeneMark_model.108044_t, internal, 4792, 4889
Valid prediction for GlimmerHMM_glimmerT_62051-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: -)Valid prediction for GeneMark_model.108043_t
Couldn't classify 4874, 5046
Sorry, prediction snap_scaffold_614-snap.1-T1 fails validation.
(ATG)	 AG	4463-4706	GT	AGG
(GAG)	 AG	4874-5046	GT	CGG
-recovered snap_scaffold_614-snap.1-T1, initial, 4463, 4706
-recovered snap_scaffold_614-snap.1-T1, internal, 4463, 4706
-recovered snap_scaffold_614-snap.1-T1, internal, 4874, 5046
Valid prediction for GlimmerHMM_glimmerT_62050-T1
Valid prediction for Augustus_model.g41242.t1

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

-building trellis in range 1 - 5371
-exon list size: 40


building trellis

2.4    
4.8    
7.1    
9.5    
11.9    
14.3    
16.7    
19.0    
21.4    
23.8    
26.2    
28.6    
31.0    
33.3    
35.7    
38.1    
40.5    
42.9    
45.2    
47.6    
50.0    
52.4    
54.8    
57.1    
59.5    
61.9    
64.3    
66.7    
69.0    
71.4    
73.8    
76.2    
78.6    
81.0    
83.3    
85.7    
88.1    
90.5    
92.9    
95.2    
97.6    
-found 3 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 3 predictions persist after filtering for low support