-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1060

-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 3366, 3412
Sorry, prediction snap_scaffold_1060-snap.1-T1 fails validation.
(ATG)	 CT	252-306	GT	AGG
(ACA)	 AG	1205-1589	GT	CAG
(CGA)	 AG	2832-2884	GT	TGG
(TCA)	 AG	3366-3412	GT	TGG
-recovered snap_scaffold_1060-snap.1-T1, initial, 252, 306
-recovered snap_scaffold_1060-snap.1-T1, internal, 1205, 1589
-recovered snap_scaffold_1060-snap.1-T1, internal, 2832, 2884
-recovered snap_scaffold_1060-snap.1-T1, internal, 3366, 3412
Couldn't classify 1205, 1496
Sorry, prediction GeneMark_model.108826_t fails validation.
(ACA)	 AG	1205-1496	GT	AGG
(AGG)	 AG	1518-1589	GT	CAG
(AGA)	 AG	1706-1739	GC	AGG
-recovered GeneMark_model.108826_t, terminal, 1706, 1739
-recovered GeneMark_model.108826_t, internal, 1205, 1496
-recovered GeneMark_model.108826_t, internal, 1518, 1589
-recovered GeneMark_model.108826_t, internal, 1706, 1739
Couldn't classify 233, 306
Sorry, prediction Augustus_model.g41500.t1 fails validation.
(ACA)	 AG	233-306	GT	AGG
(TGG)	 AG	780-1124	GT	AGG
(ACA)	 AG	1205-1453	GT	GTG
(CGA)	 AG	2832-2881	GT	CAG
(GGG)	 AG	3277-3381	CC	GAC
-recovered Augustus_model.g41500.t1, terminal, 3277, 3381
-recovered Augustus_model.g41500.t1, internal, 233, 306
-recovered Augustus_model.g41500.t1, internal, 780, 1124
-recovered Augustus_model.g41500.t1, internal, 1205, 1453
-recovered Augustus_model.g41500.t1, internal, 2832, 2881

-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 47, 153
Couldn't classify 1273, 1458
Sorry, prediction snap_scaffold_1060-snap.2-T1 fails validation.
(TCT)	 AG	47-153	GT	GGG
(GAG)	 AG	1273-1458	GT	AGG
-recovered snap_scaffold_1060-snap.2-T1, internal, 47, 153
-recovered snap_scaffold_1060-snap.2-T1, internal, 1273, 1458
Couldn't classify 15, 164
Sorry, prediction GeneMark_model.108827_t fails validation.
(CCT)	 AG	15-164	GT	GGG
(GCA)	 AG	196-294	GC	GAG
(AGA)	 AG	622-675	GT	AGG
(GCA)	 AG	698-760	GT	GTG
(TAA)	 AG	1258-1278	GT	GAG
(TAG)	 AG	1302-1490	GT	GGG
(TGT)	 AG	1604-1610	GT	GTG
(TGT)	 AG	1628-1633	AC	GAA
-recovered GeneMark_model.108827_t, terminal, 1628, 1633
-recovered GeneMark_model.108827_t, internal, 15, 164
-recovered GeneMark_model.108827_t, internal, 196, 294
-recovered GeneMark_model.108827_t, internal, 622, 675
-recovered GeneMark_model.108827_t, internal, 698, 760
-recovered GeneMark_model.108827_t, internal, 1258, 1278
-recovered GeneMark_model.108827_t, internal, 1302, 1490
-recovered GeneMark_model.108827_t, internal, 1604, 1610

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3412, rend_intergenic: 1966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 3423
-exon list size: 34


building trellis

2.8    
5.6    
8.3    
11.1    
13.9    
16.7    
19.4    
22.2    
25.0    
27.8    
30.6    
33.3    
36.1    
38.9    
41.7    
44.4    
47.2    
50.0    
52.8    
55.6    
58.3    
61.1    
63.9    
66.7    
69.4    
72.2    
75.0    
77.8    
80.6    
83.3    
86.1    
88.9    
91.7    
94.4    
97.2    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 3412, rend_intergenic: 1966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

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