-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2098

-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 1541, 1560
Sorry, prediction GeneMark_model.110032_t fails validation.
(ATG)	 GC	531-592	GT	GGG
(GGG)	 AG	672-677	GT	GGG
(GAG)	 AG	733-810	GT	AGG
(AAC)	 AG	890-901	GT	AGG
(AGG)	 AG	932-937	GT	GGG
(AGC)	 AG	960-971	GT	GGG
(AGC)	 AG	994-1005	GT	AGG
(AGG)	 AG	1034-1039	GT	AGG
(AGG)	 AG	1062-1073	GT	AGG
(AGC)	 AG	1098-1109	GT	AGG
(AAC)	 AG	1134-1169	GT	GGG
(GGC)	 AG	1314-1419	GT	TGG
(CCC)	 AG	1447-1517	GT	ATG
(GAG)	 AG	1541-1560	GC	AGG
-recovered GeneMark_model.110032_t, initial, 531, 592
-recovered GeneMark_model.110032_t, internal, 672, 677
-recovered GeneMark_model.110032_t, internal, 733, 810
-recovered GeneMark_model.110032_t, internal, 890, 901
-recovered GeneMark_model.110032_t, internal, 932, 937
-recovered GeneMark_model.110032_t, internal, 960, 971
-recovered GeneMark_model.110032_t, internal, 994, 1005
-recovered GeneMark_model.110032_t, internal, 1034, 1039
-recovered GeneMark_model.110032_t, internal, 1062, 1073
-recovered GeneMark_model.110032_t, internal, 1098, 1109
-recovered GeneMark_model.110032_t, internal, 1134, 1169
-recovered GeneMark_model.110032_t, internal, 1314, 1419
-recovered GeneMark_model.110032_t, internal, 1447, 1517
-recovered GeneMark_model.110032_t, internal, 1541, 1560

-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 118, 297
Couldn't classify 1379, 1548
Sorry, prediction snap_scaffold_2098-snap.1-T1 fails validation.
(GAT)	 AG	118-297	GT	TTG
(CAC)	 AG	714-759	GT	AGG
(GTC)	 AG	927-1046	GT	AGG
(GTG)	 AG	1379-1548	GT	AAG
-recovered snap_scaffold_2098-snap.1-T1, internal, 118, 297
-recovered snap_scaffold_2098-snap.1-T1, internal, 714, 759
-recovered snap_scaffold_2098-snap.1-T1, internal, 927, 1046
-recovered snap_scaffold_2098-snap.1-T1, internal, 1379, 1548
Couldn't classify 118, 297
Sorry, prediction Augustus_model.g41954.t1 fails validation.
(GAT)	 AG	118-297	GT	TTG
(CAC)	 AG	714-759	GT	AGG
(GTC)	 AG	927-1046	GT	AGG
(GTG)	 AG	1379-1552	GA	GAG
-recovered Augustus_model.g41954.t1, terminal, 1379, 1552
-recovered Augustus_model.g41954.t1, internal, 118, 297
-recovered Augustus_model.g41954.t1, internal, 714, 759
-recovered Augustus_model.g41954.t1, internal, 927, 1046
Couldn't classify 118, 297
Sorry, prediction GlimmerHMM_glimmerT_62975-T1 fails validation.
(GAT)	 AG	118-297	GT	TTG
(CAC)	 AG	714-759	GT	AGG
(GTC)	 AG	927-1046	GT	AGG
(GTG)	 AG	1379-1552	GA	GAG
-recovered GlimmerHMM_glimmerT_62975-T1, terminal, 1379, 1552
-recovered GlimmerHMM_glimmerT_62975-T1, internal, 118, 297
-recovered GlimmerHMM_glimmerT_62975-T1, internal, 714, 759
-recovered GlimmerHMM_glimmerT_62975-T1, internal, 927, 1046
Couldn't classify 158, 297
Sorry, prediction pasa_asmbl_27287.p1 fails validation.
(GGC)	 CA	158-297	GT	TTG
(CAC)	 AG	714-759	GT	AGG
(GTC)	 AG	927-1046	GT	AGG
(GTG)	 AG	1379-1552	GA	GAG
-recovered pasa_asmbl_27287.p1, terminal, 1379, 1552
-recovered pasa_asmbl_27287.p1, internal, 714, 759
-recovered pasa_asmbl_27287.p1, internal, 927, 1046
Couldn't classify 1408, 1548
Sorry, prediction GeneMark_model.110031_t fails validation.
(ATG)	 AC	1341-1366	GT	ATG
(TCG)	 AG	1408-1548	GT	AAG
-recovered GeneMark_model.110031_t, initial, 1341, 1366
-recovered GeneMark_model.110031_t, internal, 1408, 1548

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

-building trellis in range 1 - 1587
-exon list size: 47


building trellis

2.0    
4.1    
6.1    
8.2    
10.2    
12.2    
14.3    
16.3    
18.4    
20.4    
22.4    
24.5    
26.5    
28.6    
30.6    
32.7    
34.7    
36.7    
38.8    
40.8    
42.9    
44.9    
46.9    
49.0    
51.0    
53.1    
55.1    
57.1    
59.2    
61.2    
63.3    
65.3    
67.3    
69.4    
71.4    
73.5    
75.5    
77.6    
79.6    
81.6    
83.7    
85.7    
87.8    
89.8    
91.8    
93.9    
95.9    
98.0    
-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