-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_446

-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 4498, 4635
Couldn't classify 6423, 6569
Sorry, prediction pasa_asmbl_43693.p1 fails validation.
(GGC)	 CA	4498-4635	GT	AGG
(CAT)	 AG	4975-5025	GT	AGG
(GAC)	 AG	5601-5738	GT	GGG
(TCG)	 AG	6423-6569	CG	TAC
-recovered pasa_asmbl_43693.p1, internal, 4975, 5025
-recovered pasa_asmbl_43693.p1, internal, 5601, 5738
Valid prediction for GlimmerHMM_glimmerT_61857-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61857-T1 166-320-terminal-1 is invalid.
Couldn't classify 182, 311
Couldn't classify 6742, 6820
Sorry, prediction snap_scaffold_446-snap.1-T1 fails validation.
(GAG)	 AG	182-311	GT	AGG
(CCC)	 AG	691-799	GT	GAG
(GCT)	 AG	4499-4635	GT	AGG
(CAT)	 AG	4975-5025	GT	AGG
(GAC)	 AG	5601-5738	GT	GGG
(TCG)	 AG	6423-6571	GT	CGG
(ATG)	 AG	6742-6820	GT	AGG
add_exon() Sorry, snap_scaffold_446-snap.1-T1 6742-6820-initial-1 is invalid.
-recovered snap_scaffold_446-snap.1-T1, initial, 6742, 6820
-recovered snap_scaffold_446-snap.1-T1, internal, 182, 311
-recovered snap_scaffold_446-snap.1-T1, internal, 691, 799
-recovered snap_scaffold_446-snap.1-T1, internal, 4499, 4635
-recovered snap_scaffold_446-snap.1-T1, internal, 4975, 5025
-recovered snap_scaffold_446-snap.1-T1, internal, 5601, 5738
-recovered snap_scaffold_446-snap.1-T1, internal, 6423, 6571
-recovered snap_scaffold_446-snap.1-T1, internal, 6742, 6820
Valid prediction for GeneMark_model.107648_t
add_exon() Sorry, GeneMark_model.107648_t 166-320-terminal-1 is invalid.
Valid prediction for Augustus_model.g41117.t1
Couldn't classify 6742, 6820
Sorry, prediction GlimmerHMM_glimmerT_61859-T1 fails validation.
(ATG)	 GG	4522-4635	GT	AGG
(CAT)	 AG	4975-5025	GT	AGG
(GAC)	 AG	5601-5738	GT	GGG
(TCG)	 AG	6423-6571	GT	CGG
(ATG)	 AG	6742-6820	GT	AGG
-recovered GlimmerHMM_glimmerT_61859-T1, initial, 4522, 4635
add_exon() Sorry, GlimmerHMM_glimmerT_61859-T1 6742-6820-initial-1 is invalid.
-recovered GlimmerHMM_glimmerT_61859-T1, initial, 6742, 6820
-recovered GlimmerHMM_glimmerT_61859-T1, internal, 4975, 5025
-recovered GlimmerHMM_glimmerT_61859-T1, internal, 5601, 5738
-recovered GlimmerHMM_glimmerT_61859-T1, internal, 6423, 6571
-recovered GlimmerHMM_glimmerT_61859-T1, internal, 6742, 6820
Couldn't classify 166, 311
Sorry, prediction Augustus_model.g41116.t1 fails validation.
(GTC)	 AG	166-311	GT	AGG
(CAC)	 AG	696-761	TC	GAT
-recovered Augustus_model.g41116.t1, terminal, 696, 761
-recovered Augustus_model.g41116.t1, internal, 166, 311

-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 105, 249
Sorry, prediction GeneMark_model.107650_t fails validation.
(GGC)	 AG	105-249	GT	ATG
(AAG)	 AG	1457-1624	GT	GGG
(AGG)	 AG	1645-1948	CA	AAC
-recovered GeneMark_model.107650_t, terminal, 1645, 1948
-recovered GeneMark_model.107650_t, internal, 105, 249
-recovered GeneMark_model.107650_t, internal, 1457, 1624
Couldn't classify 94, 244
Couldn't classify 6592, 6741
Sorry, prediction snap_scaffold_446-snap.2-T1 fails validation.
(GTG)	 AG	94-244	GT	AGG
(AAC)	 AG	2334-2456	GT	GGG
(GAG)	 AG	6592-6741	GT	TGG
-recovered snap_scaffold_446-snap.2-T1, internal, 94, 244
-recovered snap_scaffold_446-snap.2-T1, internal, 2334, 2456
-recovered snap_scaffold_446-snap.2-T1, internal, 6592, 6741
Valid prediction for GeneMark_model.107649_t
Valid prediction for GlimmerHMM_glimmerT_61858-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6820, rend_intergenic: 197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 6937
-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 3 predictions from path traversal
Error with prediction: snap lend_intergenic: 6820, rend_intergenic: 197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 3 predictions persist after filtering for low support