-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_172

-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 10622, 10762
Sorry, prediction Augustus_model.g40865.t1 fails validation.
(ATG)	 CA	7444-7461	GT	AAG
(GCT)	 AG	8047-8226	GT	ATG
(GTG)	 AG	9075-9287	GT	AGG
(GGT)	 AG	10226-10369	GT	CGG
(ATC)	 AG	10622-10762	GT	AGG
-recovered Augustus_model.g40865.t1, initial, 7444, 7461
-recovered Augustus_model.g40865.t1, internal, 8047, 8226
-recovered Augustus_model.g40865.t1, internal, 9075, 9287
-recovered Augustus_model.g40865.t1, internal, 10226, 10369
-recovered Augustus_model.g40865.t1, internal, 10622, 10762
Valid prediction for GlimmerHMM_glimmerT_61447-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61447-T1 628-818-terminal-1 is invalid.
Couldn't classify 57, 96
Sorry, prediction Augustus_model.g40864.t1 fails validation.
(TCC)	 AG	57-96	GT	AGG
(TGC)	 AG	628-818	AG	GAA
-recovered Augustus_model.g40864.t1, terminal, 628, 818
-recovered Augustus_model.g40864.t1, internal, 57, 96
Couldn't classify 10622, 10762
Sorry, prediction GeneMark_model.106821_t fails validation.
(ATG)	 TC	7390-7404	GT	AGG
(GCT)	 AG	8047-8790	GT	CTG
(GTG)	 AG	9075-9287	GT	AGG
(GGT)	 AG	10226-10369	GT	CGG
(ATC)	 AG	10622-10762	GT	AGG
-recovered GeneMark_model.106821_t, initial, 7390, 7404
-recovered GeneMark_model.106821_t, internal, 8047, 8790
-recovered GeneMark_model.106821_t, internal, 9075, 9287
-recovered GeneMark_model.106821_t, internal, 10226, 10369
-recovered GeneMark_model.106821_t, internal, 10622, 10762
Couldn't classify 57, 96
Couldn't classify 10622, 10762
Sorry, prediction snap_scaffold_172-snap.1-T1 fails validation.
(TCC)	 AG	57-96	GT	AGG
(TGC)	 AG	628-773	GT	AGG
(AGG)	 AG	2638-2718	GT	TGG
(GCT)	 AG	8047-8226	GT	ATG
(GTG)	 AG	9075-9287	GT	AGG
(GGT)	 AG	10226-10369	GT	CGG
(ATC)	 AG	10622-10762	GT	AGG
-recovered snap_scaffold_172-snap.1-T1, internal, 57, 96
-recovered snap_scaffold_172-snap.1-T1, internal, 628, 773
-recovered snap_scaffold_172-snap.1-T1, internal, 2638, 2718
-recovered snap_scaffold_172-snap.1-T1, internal, 8047, 8226
-recovered snap_scaffold_172-snap.1-T1, internal, 9075, 9287
-recovered snap_scaffold_172-snap.1-T1, internal, 10226, 10369
-recovered snap_scaffold_172-snap.1-T1, internal, 10622, 10762
Couldn't classify 10622, 10762
Sorry, prediction GlimmerHMM_glimmerT_61448-T1 fails validation.
(ATG)	 TC	7390-7404	GT	AGG
(GCT)	 AG	8047-8226	GT	ATG
(GTG)	 AG	9075-9287	GT	AGG
(GGT)	 AG	10226-10369	GT	CGG
(ATC)	 AG	10622-10762	GT	AGG
-recovered GlimmerHMM_glimmerT_61448-T1, initial, 7390, 7404
-recovered GlimmerHMM_glimmerT_61448-T1, internal, 8047, 8226
-recovered GlimmerHMM_glimmerT_61448-T1, internal, 9075, 9287
-recovered GlimmerHMM_glimmerT_61448-T1, internal, 10226, 10369
-recovered GlimmerHMM_glimmerT_61448-T1, internal, 10622, 10762
Couldn't classify 57, 96
Sorry, prediction GeneMark_model.106819_t fails validation.
(TCC)	 AG	57-96	GT	AGG
(GAC)	 AG	634-775	GT	GTG
(GGA)	 AG	801-806	GT	GGG
(GAA)	 AG	829-835	GG	AGG
-recovered GeneMark_model.106819_t, terminal, 829, 835
-recovered GeneMark_model.106819_t, internal, 57, 96
-recovered GeneMark_model.106819_t, internal, 634, 775
-recovered GeneMark_model.106819_t, internal, 801, 806

-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.106820_t

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

-building trellis in range 1 - 10917
-exon list size: 29


building trellis

3.2    
6.5    
9.7    
12.9    
16.1    
19.4    
22.6    
25.8    
29.0    
32.3    
35.5    
38.7    
41.9    
45.2    
48.4    
51.6    
54.8    
58.1    
61.3    
64.5    
67.7    
71.0    
74.2    
77.4    
80.6    
83.9    
87.1    
90.3    
93.5    
96.8    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support