-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_136

-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 4365, 4855
Sorry, prediction snap_scaffold_136-snap.2-T1 fails validation.
(GAA)	 AG	4365-4855	GT	AGG
(TAT)	 AG	6987-7032	GT	AGG
(CCA)	 AG	10099-10215	GT	CGG
(AGC)	 AG	10835-10934	GT	AGG
(GGG)	 AG	10946-11133	CA	GAC
-recovered snap_scaffold_136-snap.2-T1, terminal, 10946, 11133
-recovered snap_scaffold_136-snap.2-T1, internal, 4365, 4855
-recovered snap_scaffold_136-snap.2-T1, internal, 6987, 7032
-recovered snap_scaffold_136-snap.2-T1, internal, 10099, 10215
-recovered snap_scaffold_136-snap.2-T1, internal, 10835, 10934

-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 9654, 9840
Sorry, prediction snap_scaffold_136-snap.1-T1 fails validation.
(ATG)	 AC	1465-1514	GT	TCG
(GTC)	 AG	2349-2512	GT	AGG
(GAG)	 AG	2952-3138	GT	AAG
(GGA)	 AG	5229-5373	GT	TGG
(AAC)	 AG	6056-6219	GT	AGG
(ACT)	 AG	8683-8906	GT	CTG
(GTC)	 AG	9066-9174	GT	AGG
(GTT)	 AG	9654-9840	GT	TTG
-recovered snap_scaffold_136-snap.1-T1, initial, 1465, 1514
add_exon() Sorry, snap_scaffold_136-snap.1-T1 2349-2512-terminal-2 is invalid.
-recovered snap_scaffold_136-snap.1-T1, terminal, 2349, 2512
-recovered snap_scaffold_136-snap.1-T1, internal, 2349, 2512
-recovered snap_scaffold_136-snap.1-T1, internal, 2952, 3138
-recovered snap_scaffold_136-snap.1-T1, internal, 5229, 5373
-recovered snap_scaffold_136-snap.1-T1, internal, 6056, 6219
-recovered snap_scaffold_136-snap.1-T1, internal, 8683, 8906
-recovered snap_scaffold_136-snap.1-T1, internal, 9066, 9174
-recovered snap_scaffold_136-snap.1-T1, internal, 9654, 9840
Valid prediction for Augustus_model.g39657.t1
Couldn't classify 2349, 2512
Sorry, prediction GlimmerHMM_glimmerT_59867-T1 fails validation.
(GTC)	 AG	2349-2512	GT	AGG
(GAG)	 AG	2952-3138	GT	AAG
(GGA)	 AG	5229-5373	GT	TGG
(AAC)	 AG	6056-6219	GT	AGG
(GTT)	 AG	9654-9849	AA	GAA
add_exon() Sorry, GlimmerHMM_glimmerT_59867-T1 2349-2512-terminal-2 is invalid.
-recovered GlimmerHMM_glimmerT_59867-T1, terminal, 2349, 2512
-recovered GlimmerHMM_glimmerT_59867-T1, terminal, 9654, 9849
-recovered GlimmerHMM_glimmerT_59867-T1, internal, 2349, 2512
-recovered GlimmerHMM_glimmerT_59867-T1, internal, 2952, 3138
-recovered GlimmerHMM_glimmerT_59867-T1, internal, 5229, 5373
-recovered GlimmerHMM_glimmerT_59867-T1, internal, 6056, 6219
Couldn't classify 9056, 9174
Sorry, prediction pasa_asmbl_11729.p1 fails validation.
(TTC)	 CT	9056-9174	GT	AGG
(GTT)	 AG	9654-9849	AA	GAA
-recovered pasa_asmbl_11729.p1, terminal, 9654, 9849
Couldn't classify 2374, 2512
Couldn't classify 6056, 6220
Sorry, prediction pasa_asmbl_11728.p1 fails validation.
(CTG)	 GC	2374-2512	GT	AGG
(GAG)	 AG	2952-3138	GT	AAG
(GGA)	 AG	5229-5373	GT	TGG
(AAC)	 AG	6056-6220	TA	GGT
-recovered pasa_asmbl_11728.p1, internal, 2952, 3138
-recovered pasa_asmbl_11728.p1, internal, 5229, 5373

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11736, rend_intergenic: 4365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 13200
-exon list size: 23


building trellis

4.0    
8.0    
12.0    
16.0    
20.0    
24.0    
28.0    
32.0    
36.0    
40.0    
44.0    
48.0    
52.0    
56.0    
60.0    
64.0    
68.0    
72.0    
76.0    
80.0    
84.0    
88.0    
92.0    
96.0    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 11736, rend_intergenic: 4365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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