-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_201

-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 76, 152
Sorry, prediction snap_scaffold_201-snap.1-T1 fails validation.
(GTC)	 AG	76-152	GT	AGG
(CAA)	 AG	405-626	GA	AAG
-recovered snap_scaffold_201-snap.1-T1, terminal, 405, 626
-recovered snap_scaffold_201-snap.1-T1, internal, 76, 152
Couldn't classify 9251, 9491
Sorry, prediction snap_scaffold_201-snap.2-T1 fails validation.
(ATG)	 CG	639-693	GT	AGG
(AAA)	 AG	1013-1300	GT	CAG
(CGC)	 AG	1635-1999	GT	CAG
(TAT)	 AG	7302-7448	GT	AGG
(GAA)	 AG	9251-9491	GT	AGG
-recovered snap_scaffold_201-snap.2-T1, initial, 639, 693
-recovered snap_scaffold_201-snap.2-T1, internal, 1013, 1300
-recovered snap_scaffold_201-snap.2-T1, internal, 1635, 1999
-recovered snap_scaffold_201-snap.2-T1, internal, 7302, 7448
-recovered snap_scaffold_201-snap.2-T1, internal, 9251, 9491
Valid prediction for GlimmerHMM_glimmerT_61496-T1
Couldn't classify 76, 178
Sorry, prediction Augustus_model.g40900.t1 fails validation.
(GTC)	 AG	76-178	GT	CGG
(AAC)	 AG	814-941	GG	AGG
-recovered Augustus_model.g40900.t1, terminal, 814, 941
-recovered Augustus_model.g40900.t1, internal, 76, 178
Couldn't classify 33, 75
Sorry, prediction GeneMark_model.106914_t fails validation.
(GGG)	 AG	33-75	GT	AGG
(CAG)	 AG	121-152	GT	AGG
(AGA)	 AG	461-490	GT	AGG
(AAG)	 AG	511-519	GT	GGG
(AGA)	 AG	544-555	GT	AAG
(GAG)	 AG	578-607	GC	GAG
(AGG)	 AG	630-653	GT	GAG
(AGC)	 AG	685-693	GT	AGG
(GGA)	 AG	721-776	GT	TGG
(AAC)	 AG	814-922	GT	GTG
(GGA)	 AG	1160-1300	GT	CAG
(GGA)	 AG	1324-1447	GT	TGG
(AGC)	 AG	1498-1605	GT	ATG
(GCA)	 AG	1640-1806	GC	AGG
(ACA)	 AG	1894-2029	TG	GAT
-recovered GeneMark_model.106914_t, terminal, 1894, 2029
-recovered GeneMark_model.106914_t, internal, 33, 75
-recovered GeneMark_model.106914_t, internal, 121, 152
-recovered GeneMark_model.106914_t, internal, 461, 490
-recovered GeneMark_model.106914_t, internal, 511, 519
-recovered GeneMark_model.106914_t, internal, 544, 555
-recovered GeneMark_model.106914_t, internal, 578, 607
-recovered GeneMark_model.106914_t, internal, 630, 653
-recovered GeneMark_model.106914_t, internal, 685, 693
-recovered GeneMark_model.106914_t, internal, 721, 776
-recovered GeneMark_model.106914_t, internal, 814, 922
-recovered GeneMark_model.106914_t, internal, 1160, 1300
-recovered GeneMark_model.106914_t, internal, 1324, 1447
-recovered GeneMark_model.106914_t, internal, 1498, 1605
-recovered GeneMark_model.106914_t, internal, 1640, 1806
Couldn't classify 9251, 9491
Sorry, prediction Augustus_model.g40901.t1 fails validation.
(ATG)	 AC	7323-7448	GT	AGG
(GAA)	 AG	9251-9491	GT	AGG
-recovered Augustus_model.g40901.t1, initial, 7323, 7448
-recovered Augustus_model.g40901.t1, internal, 9251, 9491
Couldn't classify 9251, 9491
Sorry, prediction GlimmerHMM_glimmerT_61497-T1 fails validation.
(ATG)	 TC	4836-4883	GT	AGG
(TAT)	 AG	7302-7448	GT	AGG
(GAA)	 AG	9251-9491	GT	AGG
-recovered GlimmerHMM_glimmerT_61497-T1, initial, 4836, 4883
-recovered GlimmerHMM_glimmerT_61497-T1, internal, 7302, 7448
-recovered GlimmerHMM_glimmerT_61497-T1, internal, 9251, 9491

-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.106916_t
Valid prediction for GeneMark_model.106915_t
Couldn't classify 32, 52
Sorry, prediction GeneMark_model.106917_t fails validation.
(GAG)	 AG	32-52	GT	AGG
(GAG)	 AG	73-81	GT	AGG
(GGA)	 AG	112-117	GT	GAG
(AGA)	 AG	152-157	GT	AGG
(AAG)	 AG	184-213	GT	AGG
(GAA)	 AG	239-299	GT	GAG
(TCA)	 AG	467-594	GT	AGG
(GCA)	 AG	653-1102	GC	GAG
(AGA)	 AG	1125-1319	GC	GAG
(AGA)	 AG	1345-1386	GT	AGG
(CAG)	 AG	1409-1780	GC	GGG
(AGA)	 AG	1801-1869	GT	GAG
(AGA)	 AG	1893-1904	GT	AGG
(AGA)	 AG	2566-2595	GT	AGG
(GGA)	 AG	2627-2779	GT	CGG
(AGA)	 AG	2806-2881	CC	GAC
-recovered GeneMark_model.106917_t, terminal, 1801, 1869
-recovered GeneMark_model.106917_t, terminal, 2806, 2881
-recovered GeneMark_model.106917_t, internal, 32, 52
-recovered GeneMark_model.106917_t, internal, 73, 81
-recovered GeneMark_model.106917_t, internal, 112, 117
-recovered GeneMark_model.106917_t, internal, 152, 157
-recovered GeneMark_model.106917_t, internal, 184, 213
-recovered GeneMark_model.106917_t, internal, 239, 299
-recovered GeneMark_model.106917_t, internal, 467, 594
-recovered GeneMark_model.106917_t, internal, 653, 1102
-recovered GeneMark_model.106917_t, internal, 1125, 1319
-recovered GeneMark_model.106917_t, internal, 1345, 1386
-recovered GeneMark_model.106917_t, internal, 1409, 1780
-recovered GeneMark_model.106917_t, internal, 1801, 1869
-recovered GeneMark_model.106917_t, internal, 1893, 1904
-recovered GeneMark_model.106917_t, internal, 2566, 2595
-recovered GeneMark_model.106917_t, internal, 2627, 2779
Valid prediction for snap_scaffold_201-snap.3-T1
Couldn't classify 467, 594
Sorry, prediction snap_scaffold_201-snap.5-T1 fails validation.
(TCA)	 AG	467-594	GT	AGG
(AGA)	 AG	758-1637	GT	AGG
(GAT)	 AG	2421-2495	GG	GAG
-recovered snap_scaffold_201-snap.5-T1, terminal, 2421, 2495
-recovered snap_scaffold_201-snap.5-T1, internal, 467, 594
-recovered snap_scaffold_201-snap.5-T1, internal, 758, 1637
Valid prediction for snap_scaffold_201-snap.4-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9491, rend_intergenic: 2466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 9838
-exon list size: 114


building trellis

0.9    
1.7    
2.6    
3.4    
4.3    
5.2    
6.0    
6.9    
7.8    
8.6    
9.5    
10.3    
11.2    
12.1    
12.9    
13.8    
14.7    
15.5    
16.4    
17.2    
18.1    
19.0    
19.8    
20.7    
21.6    
22.4    
23.3    
24.1    
25.0    
25.9    
26.7    
27.6    
28.4    
29.3    
30.2    
31.0    
31.9    
32.8    
33.6    
34.5    
35.3    
36.2    
37.1    
37.9    
38.8    
39.7    
40.5    
41.4    
42.2    
43.1    
44.0    
44.8    
45.7    
46.6    
47.4    
48.3    
49.1    
50.0    
50.9    
51.7    
52.6    
53.4    
54.3    
55.2    
56.0    
56.9    
57.8    
58.6    
59.5    
60.3    
61.2    
62.1    
62.9    
63.8    
64.7    
65.5    
66.4    
67.2    
68.1    
69.0    
69.8    
70.7    
71.6    
72.4    
73.3    
74.1    
75.0    
75.9    
76.7    
77.6    
78.4    
79.3    
80.2    
81.0    
81.9    
82.8    
83.6    
84.5    
85.3    
86.2    
87.1    
87.9    
88.8    
89.7    
90.5    
91.4    
92.2    
93.1    
94.0    
94.8    
95.7    
96.6    
97.4    
98.3    
99.1    
-found 4 predictions from path traversal
Error with prediction: snap lend_intergenic: 9491, rend_intergenic: 2466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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