-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_206

-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 9083, 9407
Sorry, prediction snap_scaffold_206-snap.3-T1 fails validation.
(ATG)	 GC	8213-8220	GT	GGG
(TTT)	 AG	8804-8810	GT	TAG
(TCT)	 AG	9083-9407	GT	AGG
-recovered snap_scaffold_206-snap.3-T1, initial, 8213, 8220
-recovered snap_scaffold_206-snap.3-T1, internal, 8804, 8810
-recovered snap_scaffold_206-snap.3-T1, internal, 9083, 9407
Valid prediction for GeneMark_model.106931_t
add_exon() Sorry, GeneMark_model.106931_t 218-419-terminal-1 is invalid.
Valid prediction for GeneMark_model.106933_t
Valid prediction for snap_scaffold_206-snap.1-T1

-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: -)Valid prediction for GeneMark_model.106932_t
Couldn't classify 271, 656
Sorry, prediction GlimmerHMM_glimmerT_61504-T1 fails validation.
(GTG)	 AG	271-656	GT	AGG
(CTA)	 AG	2406-2523	GT	TCG
(GCC)	 AG	4390-4500	GT	AGG
(AGG)	 AG	5425-5525	GT	AGG
(TTT)	 AG	6819-6909	GT	TGG
(GGG)	 AG	7462-7527	CT	AAC
-recovered GlimmerHMM_glimmerT_61504-T1, terminal, 7462, 7527
-recovered GlimmerHMM_glimmerT_61504-T1, internal, 271, 656
-recovered GlimmerHMM_glimmerT_61504-T1, internal, 2406, 2523
-recovered GlimmerHMM_glimmerT_61504-T1, internal, 4390, 4500
-recovered GlimmerHMM_glimmerT_61504-T1, internal, 5425, 5525
-recovered GlimmerHMM_glimmerT_61504-T1, internal, 6819, 6909
Couldn't classify 271, 656
Couldn't classify 7462, 7597
Sorry, prediction snap_scaffold_206-snap.2-T1 fails validation.
(GTG)	 AG	271-656	GT	AGG
(CTA)	 AG	2406-2487	GT	ACG
(GCC)	 AG	4390-4500	GT	AGG
(AGG)	 AG	5425-5525	GT	AGG
(TTT)	 AG	6819-6932	GT	ACG
(GGG)	 AG	7462-7597	GT	GGG
-recovered snap_scaffold_206-snap.2-T1, internal, 271, 656
-recovered snap_scaffold_206-snap.2-T1, internal, 2406, 2487
-recovered snap_scaffold_206-snap.2-T1, internal, 4390, 4500
-recovered snap_scaffold_206-snap.2-T1, internal, 5425, 5525
-recovered snap_scaffold_206-snap.2-T1, internal, 6819, 6932
-recovered snap_scaffold_206-snap.2-T1, internal, 7462, 7597
Couldn't classify 271, 656
Couldn't classify 8286, 8320
Sorry, prediction Augustus_model.g40904.t1 fails validation.
(GTG)	 AG	271-656	GT	AGG
(GAG)	 AG	1399-1451	GT	TGG
(GAC)	 AG	2453-2523	GT	TCG
(GCC)	 AG	4390-4500	GT	AGG
(AGG)	 AG	5425-5525	GT	AGG
(TTT)	 AG	6819-6932	GT	ACG
(GGG)	 AG	7462-7597	GT	GGG
(AAT)	 AG	8286-8320	GT	TGG
-recovered Augustus_model.g40904.t1, internal, 271, 656
-recovered Augustus_model.g40904.t1, internal, 1399, 1451
-recovered Augustus_model.g40904.t1, internal, 2453, 2523
-recovered Augustus_model.g40904.t1, internal, 4390, 4500
-recovered Augustus_model.g40904.t1, internal, 5425, 5525
-recovered Augustus_model.g40904.t1, internal, 6819, 6932
-recovered Augustus_model.g40904.t1, internal, 7462, 7597
-recovered Augustus_model.g40904.t1, internal, 8286, 8320
Couldn't classify 271, 656
Sorry, prediction GeneMark_model.106934_t fails validation.
(GTG)	 AG	271-656	GT	AGG
(GGT)	 AG	1037-1067	AT	GAA
-recovered GeneMark_model.106934_t, terminal, 1037, 1067
-recovered GeneMark_model.106934_t, internal, 271, 656

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6853, rend_intergenic: 2062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 9388, rend_intergenic: 8213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 9658
-exon list size: 41


building trellis

2.3    
4.7    
7.0    
9.3    
11.6    
14.0    
16.3    
18.6    
20.9    
23.3    
25.6    
27.9    
30.2    
32.6    
34.9    
37.2    
39.5    
41.9    
44.2    
46.5    
48.8    
51.2    
53.5    
55.8    
58.1    
60.5    
62.8    
65.1    
67.4    
69.8    
72.1    
74.4    
76.7    
79.1    
81.4    
83.7    
86.0    
88.4    
90.7    
93.0    
95.3    
97.7    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 6853, rend_intergenic: 2062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 9388, rend_intergenic: 8213  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