-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_176

-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 GeneMark_model.106832_t
Valid prediction for GeneMark_model.106830_t
Valid prediction for GeneMark_model.106834_t

-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.106833_t
Valid prediction for GeneMark_model.106831_t
Couldn't classify 2550, 2683
Sorry, prediction GlimmerHMM_glimmerT_61454-T1 fails validation.
(GTG)	 AG	2550-2683	GT	AGG
(GTT)	 AG	4805-4909	GT	GAG
(TTG)	 AG	5789-5818	GT	AGG
(TTC)	 AG	9082-9669	GG	GAG
-recovered GlimmerHMM_glimmerT_61454-T1, terminal, 9082, 9669
-recovered GlimmerHMM_glimmerT_61454-T1, internal, 2550, 2683
-recovered GlimmerHMM_glimmerT_61454-T1, internal, 4805, 4909
-recovered GlimmerHMM_glimmerT_61454-T1, internal, 5789, 5818
Couldn't classify 2151, 2234
Couldn't classify 9041, 9637
Sorry, prediction snap_scaffold_176-snap.1-T1 fails validation.
(ATC)	 AG	2151-2234	GT	TGG
(GAG)	 AG	2565-2696	GT	AGG
(CAT)	 AG	3414-3773	GT	GGG
(GGA)	 AG	4815-5056	GT	GGG
(TTG)	 AG	5789-5818	GT	AGG
(ACC)	 AG	8048-8075	GT	AGG
(CTC)	 AG	9041-9637	GT	GTG
-recovered snap_scaffold_176-snap.1-T1, internal, 2151, 2234
-recovered snap_scaffold_176-snap.1-T1, internal, 2565, 2696
-recovered snap_scaffold_176-snap.1-T1, internal, 3414, 3773
-recovered snap_scaffold_176-snap.1-T1, internal, 4815, 5056
-recovered snap_scaffold_176-snap.1-T1, internal, 5789, 5818
-recovered snap_scaffold_176-snap.1-T1, internal, 8048, 8075
-recovered snap_scaffold_176-snap.1-T1, internal, 9041, 9637
Couldn't classify 10543, 10597
Sorry, prediction GeneMark_model.106829_t fails validation.
(ATG)	 AG	6885-6907	GT	ATG
(GGA)	 AG	7340-7357	GT	GAG
(AGC)	 AG	7381-7386	GT	CAG
(CAC)	 AG	7453-7464	GT	GTG
(GAG)	 AG	7492-7510	GT	AGG
(TTC)	 AG	9082-9635	GT	GGG
(GAA)	 AG	10225-10248	GT	GGG
(CTG)	 AG	10270-10365	GT	AGG
(AGA)	 AG	10543-10597	GC	AAG
-recovered GeneMark_model.106829_t, initial, 6885, 6907
-recovered GeneMark_model.106829_t, internal, 6885, 6907
-recovered GeneMark_model.106829_t, internal, 7340, 7357
-recovered GeneMark_model.106829_t, internal, 7381, 7386
-recovered GeneMark_model.106829_t, internal, 7453, 7464
-recovered GeneMark_model.106829_t, internal, 7492, 7510
-recovered GeneMark_model.106829_t, internal, 9082, 9635
-recovered GeneMark_model.106829_t, internal, 10225, 10248
-recovered GeneMark_model.106829_t, internal, 10270, 10365
-recovered GeneMark_model.106829_t, internal, 10543, 10597
Couldn't classify 84, 98
Sorry, prediction GeneMark_model.106835_t fails validation.
(GGG)	 AG	84-98	GT	GGG
(TGA)	 AG	123-140	GT	GGG
(TGA)	 AG	167-211	GT	GGG
(TGA)	 AG	245-259	GT	GGG
(GGG)	 AG	282-290	GT	GGG
(GGT)	 AG	323-340	GT	AGG
(GGG)	 AG	366-371	GT	GAG
(GGG)	 AG	398-511	GT	AGG
(AGG)	 AG	536-550	GT	GAG
(GGG)	 AG	577-597	GT	GGG
(GGG)	 AG	622-636	GT	GGG
(GGG)	 AG	670-675	GT	GGG
(GGG)	 AG	700-705	GT	GAG
(GAG)	 AG	734-755	TC	GAT
-recovered GeneMark_model.106835_t, terminal, 734, 755
-recovered GeneMark_model.106835_t, internal, 84, 98
-recovered GeneMark_model.106835_t, internal, 123, 140
-recovered GeneMark_model.106835_t, internal, 167, 211
-recovered GeneMark_model.106835_t, internal, 245, 259
-recovered GeneMark_model.106835_t, internal, 282, 290
-recovered GeneMark_model.106835_t, internal, 323, 340
-recovered GeneMark_model.106835_t, internal, 366, 371
-recovered GeneMark_model.106835_t, internal, 398, 511
-recovered GeneMark_model.106835_t, internal, 536, 550
-recovered GeneMark_model.106835_t, internal, 577, 597
-recovered GeneMark_model.106835_t, internal, 622, 636
-recovered GeneMark_model.106835_t, internal, 670, 675
-recovered GeneMark_model.106835_t, internal, 700, 705

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 10611
-exon list size: 108


building trellis

0.9    
1.8    
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8.2    
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10.9    
11.8    
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13.6    
14.5    
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17.3    
18.2    
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20.9    
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24.5    
25.5    
26.4    
27.3    
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29.1    
30.0    
30.9    
31.8    
32.7    
33.6    
34.5    
35.5    
36.4    
37.3    
38.2    
39.1    
40.0    
40.9    
41.8    
42.7    
43.6    
44.5    
45.5    
46.4    
47.3    
48.2    
49.1    
50.0    
50.9    
51.8    
52.7    
53.6    
54.5    
55.5    
56.4    
57.3    
58.2    
59.1    
60.0    
60.9    
61.8    
62.7    
63.6    
64.5    
65.5    
66.4    
67.3    
68.2    
69.1    
70.0    
70.9    
71.8    
72.7    
73.6    
74.5    
75.5    
76.4    
77.3    
78.2    
79.1    
80.0    
80.9    
81.8    
82.7    
83.6    
84.5    
85.5    
86.4    
87.3    
88.2    
89.1    
90.0    
90.9    
91.8    
92.7    
93.6    
94.5    
95.5    
96.4    
97.3    
98.2    
99.1    
-found 6 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support