-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1746

-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 35, 74
Sorry, prediction snap_scaffold_1746-snap.2-T1 fails validation.
(CTC)	 AG	35-74	GT	GGG
(TCG)	 AG	728-830	GT	TGG
(TAG)	 AG	1467-1558	AA	AAA
-recovered snap_scaffold_1746-snap.2-T1, terminal, 1467, 1558
-recovered snap_scaffold_1746-snap.2-T1, internal, 35, 74
-recovered snap_scaffold_1746-snap.2-T1, internal, 728, 830
Valid prediction for GeneMark_model.109685_t

-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 1848, 1983
Sorry, prediction GeneMark_model.109684_t fails validation.
(ATG)	 GT	1719-1721	GT	TGG
(GTG)	 AG	1758-1825	GC	GAG
(AGC)	 AG	1848-1983	GT	AGG
-recovered GeneMark_model.109684_t, initial, 1719, 1721
-recovered GeneMark_model.109684_t, internal, 1758, 1825
-recovered GeneMark_model.109684_t, internal, 1848, 1983
Couldn't classify 234, 371
Sorry, prediction GlimmerHMM_glimmerT_62803-T1 fails validation.
(GAT)	 AG	234-371	GT	AGG
(GTG)	 AG	481-623	GT	AGG
(CGC)	 AG	794-869	GA	AAG
-recovered GlimmerHMM_glimmerT_62803-T1, terminal, 794, 869
-recovered GlimmerHMM_glimmerT_62803-T1, internal, 234, 371
-recovered GlimmerHMM_glimmerT_62803-T1, internal, 481, 623
Couldn't classify 234, 371
Couldn't classify 1867, 1989
Sorry, prediction snap_scaffold_1746-snap.1-T1 fails validation.
(GAT)	 AG	234-371	GT	AGG
(GTG)	 AG	481-623	GT	AGG
(CGC)	 AG	794-865	GT	GTG
(GGT)	 AG	1204-1327	GT	TTG
(ACG)	 AG	1867-1989	GT	AGG
-recovered snap_scaffold_1746-snap.1-T1, internal, 234, 371
-recovered snap_scaffold_1746-snap.1-T1, internal, 481, 623
-recovered snap_scaffold_1746-snap.1-T1, internal, 794, 865
-recovered snap_scaffold_1746-snap.1-T1, internal, 1204, 1327
-recovered snap_scaffold_1746-snap.1-T1, internal, 1867, 1989
Couldn't classify 234, 371
Sorry, prediction GeneMark_model.109686_t fails validation.
(GAT)	 AG	234-371	GT	AGG
(GTG)	 AG	481-623	GT	AGG
(CGC)	 AG	815-865	GT	GTG
(GGA)	 AG	902-931	GT	GAG
(GAA)	 AG	961-987	GT	GGG
(AGA)	 AG	1009-1035	GT	GGG
(GAA)	 AG	1057-1071	GT	GAG
(GAA)	 AG	1095-1121	GT	GGG
(GGA)	 AG	1145-1182	GT	AGG
(GGT)	 AG	1204-1214	TC	GAT
-recovered GeneMark_model.109686_t, terminal, 1204, 1214
-recovered GeneMark_model.109686_t, internal, 234, 371
-recovered GeneMark_model.109686_t, internal, 481, 623
-recovered GeneMark_model.109686_t, internal, 815, 865
-recovered GeneMark_model.109686_t, internal, 902, 931
-recovered GeneMark_model.109686_t, internal, 961, 987
-recovered GeneMark_model.109686_t, internal, 1009, 1035
-recovered GeneMark_model.109686_t, internal, 1057, 1071
-recovered GeneMark_model.109686_t, internal, 1095, 1121
-recovered GeneMark_model.109686_t, internal, 1145, 1182
Valid prediction for GlimmerHMM_glimmerT_62802-T1
Couldn't classify 234, 371
Couldn't classify 1758, 1899
Sorry, prediction Augustus_model.g41810.t1 fails validation.
(GAT)	 AG	234-371	GT	AGG
(GTG)	 AG	481-623	GT	AGG
(CGC)	 AG	794-865	GT	GTG
(GGT)	 AG	1204-1327	GT	TTG
(GTG)	 AG	1758-1899	GT	AGG
-recovered Augustus_model.g41810.t1, internal, 234, 371
-recovered Augustus_model.g41810.t1, internal, 481, 623
-recovered Augustus_model.g41810.t1, internal, 794, 865
-recovered Augustus_model.g41810.t1, internal, 1204, 1327
-recovered Augustus_model.g41810.t1, internal, 1758, 1899

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 1760, rend_intergenic: 35  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 1993
-exon list size: 43


building trellis

2.2    
4.4    
6.7    
8.9    
11.1    
13.3    
15.6    
17.8    
20.0    
22.2    
24.4    
26.7    
28.9    
31.1    
33.3    
35.6    
37.8    
40.0    
42.2    
44.4    
46.7    
48.9    
51.1    
53.3    
55.6    
57.8    
60.0    
62.2    
64.4    
66.7    
68.9    
71.1    
73.3    
75.6    
77.8    
80.0    
82.2    
84.4    
86.7    
88.9    
91.1    
93.3    
95.6    
97.8    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 1760, rend_intergenic: 35  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