-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1611

-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 65, 168
Couldn't classify 1983, 2072
Sorry, prediction Augustus_model.g41760.t1 fails validation.
(GCC)	 AG	65-168	GT	CGG
(GCC)	 AG	245-430	GT	CGG
(GGC)	 AG	790-880	GT	CGG
(ATA)	 AG	1340-1398	GT	AGG
(CTG)	 AG	1734-1826	GT	ACG
(GTG)	 AG	1983-2072	GT	AGG
-recovered Augustus_model.g41760.t1, internal, 65, 168
-recovered Augustus_model.g41760.t1, internal, 245, 430
-recovered Augustus_model.g41760.t1, internal, 790, 880
-recovered Augustus_model.g41760.t1, internal, 1340, 1398
-recovered Augustus_model.g41760.t1, internal, 1734, 1826
-recovered Augustus_model.g41760.t1, internal, 1983, 2072
Couldn't classify 65, 168
Sorry, prediction GeneMark_model.109535_t fails validation.
(GCC)	 AG	65-168	GT	CGG
(GCC)	 AG	245-330	GT	GAG
(AGG)	 AG	377-392	AG	GAA
-recovered GeneMark_model.109535_t, terminal, 377, 392
-recovered GeneMark_model.109535_t, internal, 65, 168
-recovered GeneMark_model.109535_t, internal, 245, 330
Couldn't classify 67, 168
Couldn't classify 1983, 2072
Sorry, prediction pasa_asmbl_17636.p1 fails validation.
(CTG)	 GC	67-168	GT	CGG
(GCC)	 AG	245-430	GT	CGG
(GGC)	 AG	790-880	GT	CGG
(ATA)	 AG	1340-1398	GT	AGG
(CTG)	 AG	1734-1826	GT	ACG
(GTG)	 AG	1983-2072	GT	AGG
-recovered pasa_asmbl_17636.p1, internal, 245, 430
-recovered pasa_asmbl_17636.p1, internal, 790, 880
-recovered pasa_asmbl_17636.p1, internal, 1340, 1398
-recovered pasa_asmbl_17636.p1, internal, 1734, 1826
-recovered pasa_asmbl_17636.p1, internal, 1983, 2072
Couldn't classify 65, 168
Couldn't classify 1983, 2072
Sorry, prediction snap_scaffold_1611-snap.1-T1 fails validation.
(GCC)	 AG	65-168	GT	CGG
(GCC)	 AG	245-430	GT	CGG
(GGC)	 AG	790-880	GT	CGG
(ATA)	 AG	1340-1398	GT	AGG
(CTG)	 AG	1734-1826	GT	ACG
(GTG)	 AG	1983-2072	GT	AGG
-recovered snap_scaffold_1611-snap.1-T1, internal, 65, 168
-recovered snap_scaffold_1611-snap.1-T1, internal, 245, 430
-recovered snap_scaffold_1611-snap.1-T1, internal, 790, 880
-recovered snap_scaffold_1611-snap.1-T1, internal, 1340, 1398
-recovered snap_scaffold_1611-snap.1-T1, internal, 1734, 1826
-recovered snap_scaffold_1611-snap.1-T1, internal, 1983, 2072
Couldn't classify 1734, 1826
Sorry, prediction GlimmerHMM_glimmerT_62737-T1 fails validation.
(ATG)	 AG	73-168	GT	CGG
(GCC)	 AG	245-430	GT	CGG
(GGC)	 AG	790-880	GT	CGG
(ATA)	 AG	1340-1398	GT	AGG
(CTG)	 AG	1734-1826	GT	ACG
-recovered GlimmerHMM_glimmerT_62737-T1, initial, 73, 168
-recovered GlimmerHMM_glimmerT_62737-T1, internal, 73, 168
-recovered GlimmerHMM_glimmerT_62737-T1, internal, 245, 430
-recovered GlimmerHMM_glimmerT_62737-T1, internal, 790, 880
-recovered GlimmerHMM_glimmerT_62737-T1, internal, 1340, 1398
-recovered GlimmerHMM_glimmerT_62737-T1, internal, 1734, 1826

-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 265, 389
Couldn't classify 764, 964
Sorry, prediction snap_scaffold_1611-snap.2-T1 fails validation.
(CGG)	 AG	265-389	GT	TTG
(GGC)	 AG	764-964	GT	CAG
-recovered snap_scaffold_1611-snap.2-T1, internal, 265, 389
-recovered snap_scaffold_1611-snap.2-T1, internal, 764, 964
Valid prediction for GeneMark_model.109536_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2072, rend_intergenic: 1183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 2146
-exon list size: 18


building trellis

5.0    
10.0    
15.0    
20.0    
25.0    
30.0    
35.0    
40.0    
45.0    
50.0    
55.0    
60.0    
65.0    
70.0    
75.0    
80.0    
85.0    
90.0    
95.0    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2072, rend_intergenic: 1183  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