-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_169

-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: +)Valid prediction for snap_scaffold_169-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_61440-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61440-T1 841-1054-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_61443-T1
Valid prediction for snap_scaffold_169-snap.5-T1
Valid prediction for GlimmerHMM_glimmerT_61441-T1
Valid prediction for Augustus_model.g40863.t1
Valid prediction for snap_scaffold_169-snap.1-T1
add_exon() Sorry, snap_scaffold_169-snap.1-T1 841-1054-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_61442-T1
Valid prediction for GeneMark_model.106815_t
Valid prediction for snap_scaffold_169-snap.3-T1
Valid prediction for Augustus_model.g40862.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: -)Couldn't classify 10749, 10822
Sorry, prediction GeneMark_model.106814_t fails validation.
(ATG)	 GG	6342-6400	GT	GGG
(GAG)	 AG	6440-6448	GT	GGG
(GTC)	 AG	6482-6499	GT	AGG
(GAA)	 AG	6523-6622	GT	AGG
(GAG)	 AG	6739-6779	GT	AGG
(TGC)	 AG	6981-7075	GT	TGG
(CGG)	 AG	7266-7421	GT	AGG
(ACA)	 AG	7502-7541	GT	GGG
(CAA)	 AG	7562-7591	GT	GAG
(GAG)	 AG	7634-7639	GT	AGG
(GCA)	 AG	7731-7742	GT	AGG
(AGA)	 AG	8135-8212	GT	GGG
(AGA)	 AG	8589-8597	GT	CCG
(ATC)	 AG	8646-8697	GT	TGG
(GTG)	 AG	8736-8804	GT	TTG
(AAC)	 AG	10267-10341	GT	CAG
(CTG)	 AG	10364-10476	GT	GAG
(GGG)	 AG	10500-10553	GT	GAG
(GGT)	 AG	10577-10642	GT	GAG
(GGG)	 AG	10666-10698	GT	GAG
(GAG)	 AG	10749-10822	GT	AGG
-recovered GeneMark_model.106814_t, initial, 6342, 6400
-recovered GeneMark_model.106814_t, internal, 6440, 6448
-recovered GeneMark_model.106814_t, internal, 6482, 6499
-recovered GeneMark_model.106814_t, internal, 6523, 6622
-recovered GeneMark_model.106814_t, internal, 6739, 6779
-recovered GeneMark_model.106814_t, internal, 6981, 7075
-recovered GeneMark_model.106814_t, internal, 7266, 7421
-recovered GeneMark_model.106814_t, internal, 7502, 7541
-recovered GeneMark_model.106814_t, internal, 7562, 7591
-recovered GeneMark_model.106814_t, internal, 7634, 7639
-recovered GeneMark_model.106814_t, internal, 7731, 7742
-recovered GeneMark_model.106814_t, internal, 8135, 8212
-recovered GeneMark_model.106814_t, internal, 8589, 8597
-recovered GeneMark_model.106814_t, internal, 8646, 8697
-recovered GeneMark_model.106814_t, internal, 8736, 8804
-recovered GeneMark_model.106814_t, internal, 10267, 10341
-recovered GeneMark_model.106814_t, internal, 10364, 10476
-recovered GeneMark_model.106814_t, internal, 10500, 10553
-recovered GeneMark_model.106814_t, internal, 10577, 10642
-recovered GeneMark_model.106814_t, internal, 10666, 10698
-recovered GeneMark_model.106814_t, internal, 10749, 10822
Couldn't classify 1554, 1828
Sorry, prediction snap_scaffold_169-snap.4-T1 fails validation.
(GCC)	 AG	1554-1828	GT	TGG
(TGA)	 AG	3533-3645	AG	GAA
-recovered snap_scaffold_169-snap.4-T1, terminal, 3533, 3645
-recovered snap_scaffold_169-snap.4-T1, internal, 1554, 1828

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9693, rend_intergenic: 7791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 11246
-exon list size: 76


building trellis

1.3    
2.6    
3.8    
5.1    
6.4    
7.7    
9.0    
10.3    
11.5    
12.8    
14.1    
15.4    
16.7    
17.9    
19.2    
20.5    
21.8    
23.1    
24.4    
25.6    
26.9    
28.2    
29.5    
30.8    
32.1    
33.3    
34.6    
35.9    
37.2    
38.5    
39.7    
41.0    
42.3    
43.6    
44.9    
46.2    
47.4    
48.7    
50.0    
51.3    
52.6    
53.8    
55.1    
56.4    
57.7    
59.0    
60.3    
61.5    
62.8    
64.1    
65.4    
66.7    
67.9    
69.2    
70.5    
71.8    
73.1    
74.4    
75.6    
76.9    
78.2    
79.5    
80.8    
82.1    
83.3    
84.6    
85.9    
87.2    
88.5    
89.7    
91.0    
92.3    
93.6    
94.9    
96.2    
97.4    
98.7    
-found 4 predictions from path traversal
Error with prediction: snap lend_intergenic: 9693, rend_intergenic: 7791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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