-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_265

-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 8667, 8788
Sorry, prediction snap_scaffold_265-snap.2-T1 fails validation.
(ATG)	 AG	83-136	GT	TGG
(CTG)	 AG	1230-1657	GT	CTG
(CGG)	 AG	3729-3822	GT	GAG
(GCA)	 AG	5407-5500	GT	CGG
(GTC)	 AG	8667-8788	GT	CAG
-recovered snap_scaffold_265-snap.2-T1, initial, 83, 136
-recovered snap_scaffold_265-snap.2-T1, internal, 83, 136
-recovered snap_scaffold_265-snap.2-T1, internal, 1230, 1657
-recovered snap_scaffold_265-snap.2-T1, internal, 3729, 3822
-recovered snap_scaffold_265-snap.2-T1, internal, 5407, 5500
-recovered snap_scaffold_265-snap.2-T1, internal, 8667, 8788
Valid prediction for GeneMark_model.107124_t
Couldn't classify 908, 1038
Sorry, prediction GeneMark_model.107123_t fails validation.
(ACA)	 AG	908-1038	GT	CAG
(CGC)	 AG	1086-1096	GT	CAG
(CTG)	 AG	1230-1694	GT	GGG
(GCG)	 AG	2302-2438	GT	TGG
(GGT)	 AG	2788-2817	GT	GGG
(GCC)	 AG	2850-2876	GT	GGG
(GGA)	 AG	3512-3562	GC	AGG
(GAG)	 AG	3588-3824	GT	GTG
(AGA)	 AG	3878-3904	GC	GAG
(AGA)	 AG	3928-4065	GC	GAG
(AGA)	 AG	4089-4128	CC	GAC
-recovered GeneMark_model.107123_t, terminal, 4089, 4128
-recovered GeneMark_model.107123_t, internal, 908, 1038
-recovered GeneMark_model.107123_t, internal, 1086, 1096
-recovered GeneMark_model.107123_t, internal, 1230, 1694
-recovered GeneMark_model.107123_t, internal, 2302, 2438
-recovered GeneMark_model.107123_t, internal, 2788, 2817
-recovered GeneMark_model.107123_t, internal, 2850, 2876
-recovered GeneMark_model.107123_t, internal, 3512, 3562
-recovered GeneMark_model.107123_t, internal, 3588, 3824
-recovered GeneMark_model.107123_t, internal, 3878, 3904
-recovered GeneMark_model.107123_t, internal, 3928, 4065

-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.107125_t
add_exon() Sorry, GeneMark_model.107125_t 127-641-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_61602-T1
Valid prediction for GlimmerHMM_glimmerT_61601-T1
Couldn't classify 8643, 8781
Sorry, prediction snap_scaffold_265-snap.1-T1 fails validation.
(ATG)	 AG	130-563	GT	GGG
(CTG)	 AG	3226-3429	GT	AGG
(CCG)	 AG	4320-4468	GT	CGG
(AGG)	 AG	7145-7618	GT	CAG
(CGC)	 AG	7800-7884	GT	AGG
(CCC)	 AG	7957-8011	GT	GGG
(GTA)	 AG	8643-8781	GT	ACG
-recovered snap_scaffold_265-snap.1-T1, initial, 130, 563
-recovered snap_scaffold_265-snap.1-T1, internal, 130, 563
-recovered snap_scaffold_265-snap.1-T1, internal, 3226, 3429
-recovered snap_scaffold_265-snap.1-T1, internal, 4320, 4468
-recovered snap_scaffold_265-snap.1-T1, internal, 7145, 7618
-recovered snap_scaffold_265-snap.1-T1, internal, 7800, 7884
-recovered snap_scaffold_265-snap.1-T1, internal, 7957, 8011
-recovered snap_scaffold_265-snap.1-T1, internal, 8643, 8781
Valid prediction for Augustus_model.g40960.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8699, rend_intergenic: 83  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8828
-exon list size: 74


building trellis

1.3    
2.6    
3.9    
5.3    
6.6    
7.9    
9.2    
10.5    
11.8    
13.2    
14.5    
15.8    
17.1    
18.4    
19.7    
21.1    
22.4    
23.7    
25.0    
26.3    
27.6    
28.9    
30.3    
31.6    
32.9    
34.2    
35.5    
36.8    
38.2    
39.5    
40.8    
42.1    
43.4    
44.7    
46.1    
47.4    
48.7    
50.0    
51.3    
52.6    
53.9    
55.3    
56.6    
57.9    
59.2    
60.5    
61.8    
63.2    
64.5    
65.8    
67.1    
68.4    
69.7    
71.1    
72.4    
73.7    
75.0    
76.3    
77.6    
78.9    
80.3    
81.6    
82.9    
84.2    
85.5    
86.8    
88.2    
89.5    
90.8    
92.1    
93.4    
94.7    
96.1    
97.4    
98.7    
-found 3 predictions from path traversal
Error with prediction: snap lend_intergenic: 8699, rend_intergenic: 83  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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