-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_16453980-16649423

-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_12-snap.3191-T1
Valid prediction for snap_scaffold_12-snap.3161-T1
Valid prediction for snap_scaffold_12-snap.3157-T1
Couldn't classify 155686, 156198
Sorry, prediction pasa_asmbl_9156.p1 fails validation.
(ACG)	 TC	155686-156198	CC	TCC
Valid prediction for GlimmerHMM_glimmerT_30844-T1
Valid prediction for snap_scaffold_12-snap.3162-T1
Valid prediction for snap_scaffold_12-snap.3176-T1
Valid prediction for Augustus_model.g20435.t1
Valid prediction for snap_scaffold_12-snap.3164-T1
Valid prediction for Augustus_model.g20443.t1
Valid prediction for snap_scaffold_12-snap.3186-T1
Valid prediction for snap_scaffold_12-snap.3160-T1
Valid prediction for Augustus_model.g20442.t1
Valid prediction for Augustus_model.g20426.t1
Valid prediction for GlimmerHMM_glimmerT_30837-T1
Valid prediction for snap_scaffold_12-snap.3185-T1
Valid prediction for GlimmerHMM_glimmerT_30834-T1
Valid prediction for GlimmerHMM_glimmerT_30817-T1
Valid prediction for GlimmerHMM_glimmerT_30818-T1
Valid prediction for Augustus_model.g20446.t1
Valid prediction for Augustus_model.g20422.t1
Valid prediction for GlimmerHMM_glimmerT_30816-T1
Valid prediction for GlimmerHMM_glimmerT_30839-T1
Couldn't classify 84000, 84602
Sorry, prediction pasa_asmbl_9133.p1 fails validation.
(CTG)	 CT	84000-84602	TT	GGT
Valid prediction for snap_scaffold_12-snap.3187-T1
Valid prediction for snap_scaffold_12-snap.3182-T1
Valid prediction for GlimmerHMM_glimmerT_30832-T1
Valid prediction for GlimmerHMM_glimmerT_30833-T1
Valid prediction for Augustus_model.g20445.t1
Valid prediction for GlimmerHMM_glimmerT_30823-T1
Valid prediction for Augustus_model.g20441.t1
Valid prediction for Augustus_model.g20425.t1
Valid prediction for snap_scaffold_12-snap.3192-T1
Valid prediction for Augustus_model.g20440.t1
Valid prediction for GlimmerHMM_glimmerT_30827-T1
Valid prediction for snap_scaffold_12-snap.3180-T1
Valid prediction for snap_scaffold_12-snap.3188-T1
Couldn't classify 135483, 136085
Sorry, prediction pasa_asmbl_9223.p1 fails validation.
(GTG)	 AT	135483-136085	TA	CCT
Valid prediction for snap_scaffold_12-snap.3159-T1
Valid prediction for GlimmerHMM_glimmerT_30845-T1
Valid prediction for GlimmerHMM_glimmerT_30841-T1
Valid prediction for snap_scaffold_12-snap.3181-T1
Valid prediction for Augustus_model.g20444.t1
Valid prediction for GlimmerHMM_glimmerT_30814-T1
Valid prediction for Augustus_model.g20448.t1
Valid prediction for GlimmerHMM_glimmerT_30840-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: -)Valid prediction for snap_scaffold_12-snap.3179-T1
Valid prediction for pasa_asmbl_9128.p1
Couldn't classify 183572, 185023
Sorry, prediction pasa_asmbl_9125.p1 fails validation.
(TCT)	 TG	183572-185023	AG	CGA
Valid prediction for snap_scaffold_12-snap.3171-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_30830-T1
Valid prediction for Augustus_model.g20437.t1
Valid prediction for snap_scaffold_12-snap.3178-T1
Couldn't classify 26220, 26879
Sorry, prediction pasa_asmbl_8252.p1 fails validation.
(CGC)	 CT	26220-26879	CA	CGC
Valid prediction for CodingQuarry_transcript_10526-T1
Valid prediction for snap_scaffold_12-snap.3189-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.3170-T1
Valid prediction for HiQ_model.g20433.t1
Valid prediction for Augustus_model.g20429.t1
Valid prediction for CodingQuarry_transcript_10528-T1
Couldn't classify 29051, 29401
Sorry, prediction pasa_asmbl_8212.p1 fails validation.
(CTG)	 GG	29051-29401	GT	GTG
Valid prediction for Augustus_model.g20431.t1
Valid prediction for GlimmerHMM_glimmerT_30829-T1
Valid prediction for snap_scaffold_12-snap.3183-T1
Valid prediction for snap_scaffold_12-snap.3177-T1
Couldn't classify 95372, 95695
Sorry, prediction pasa_asmbl_9134.p1 fails validation.
(ATG)	 TC	95372-95695	GA	AGG
Valid prediction for snap_scaffold_12-snap.3168-T1
Valid prediction for GlimmerHMM_glimmerT_30836-T1
Valid prediction for GlimmerHMM_glimmerT_30843-T1
Valid prediction for GlimmerHMM_glimmerT_30828-T1
Valid prediction for snap_scaffold_12-snap.3163-T1
Valid prediction for snap_scaffold_12-snap.3174-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.3165-T1
Valid prediction for Augustus_model.g20430.t1
Valid prediction for GlimmerHMM_glimmerT_30838-T1
Valid prediction for snap_scaffold_12-snap.3158-T1
Valid prediction for snap_scaffold_12-snap.3190-T1
Valid prediction for snap_scaffold_12-snap.3166-T1
Valid prediction for Augustus_model.g20438.t1
Valid prediction for snap_scaffold_12-snap.3169-T1
Valid prediction for Augustus_model.g20432.t1
Valid prediction for GlimmerHMM_glimmerT_30831-T1
Valid prediction for GlimmerHMM_glimmerT_30842-T1
Valid prediction for Augustus_model.g20424.t1
Couldn't classify 155405, 155968
Sorry, prediction pasa_asmbl_9126.p1 fails validation.
(TTT)	 AT	155405-155968	AG	AGA
Valid prediction for snap_scaffold_12-snap.3184-T1
Valid prediction for snap_scaffold_12-snap.3172-T1
Valid prediction for snap_scaffold_12-snap.3173-T1
Valid prediction for GlimmerHMM_glimmerT_30822-T1
Valid prediction for CodingQuarry_transcript_10529-T1
Valid prediction for snap_scaffold_12-snap.3175-T1
Valid prediction for GlimmerHMM_glimmerT_30820-T1
Valid prediction for GlimmerHMM_glimmerT_30825-T1
Valid prediction for GlimmerHMM_glimmerT_30846-T1
Valid prediction for GlimmerHMM_glimmerT_30835-T1
Valid prediction for GlimmerHMM_glimmerT_30821-T1
Valid prediction for Augustus_model.g20428.t1
Valid prediction for Augustus_model.g20447.t1
Valid prediction for CodingQuarry_transcript_10527-T1
Valid prediction for CodingQuarry_transcript_10525-T1
Valid prediction for GlimmerHMM_glimmerT_30815-T1
Valid prediction for GlimmerHMM_glimmerT_30819-T1
Valid prediction for GlimmerHMM_glimmerT_30824-T1
Valid prediction for snap_scaffold_12-snap.3167-T1
Valid prediction for Augustus_model.g20427.t1
Valid prediction for GlimmerHMM_glimmerT_30826-T1
Valid prediction for HiQ_model.g20434.t1
Valid prediction for Augustus_model.g20439.t1
Valid prediction for Augustus_model.g20423.t1
Valid prediction for Augustus_model.g20436.t1
Valid prediction for Augustus_model.g20449.t1
Valid prediction for pasa_asmbl_9132.p1

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

-building trellis in range 1 - 195444
-exon list size: 250


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.8    
3.2    
3.6    
4.0    
4.4    
4.8    
5.2    
5.6    
6.0    
6.3    
6.7    
7.1    
7.5    
7.9    
8.3    
8.7    
9.1    
9.5    
9.9    
10.3    
10.7    
11.1    
11.5    
11.9    
12.3    
12.7    
13.1    
13.5    
13.9    
14.3    
14.7    
15.1    
15.5    
15.9    
16.3    
16.7    
17.1    
17.5    
17.9    
18.3    
18.7    
19.0    
19.4    
19.8    
20.2    
20.6    
21.0    
21.4    
21.8    
22.2    
22.6    
23.0    
23.4    
23.8    
24.2    
24.6    
25.0    
25.4    
25.8    
26.2    
26.6    
27.0    
27.4    
27.8    
28.2    
28.6    
29.0    
29.4    
29.8    
30.2    
30.6    
31.0    
31.3    
31.7    
32.1    
32.5    
32.9    
33.3    
33.7    
34.1    
34.5    
34.9    
35.3    
35.7    
36.1    
36.5    
36.9    
37.3    
37.7    
38.1    
38.5    
38.9    
39.3    
39.7    
40.1    
40.5    
40.9    
41.3    
41.7    
42.1    
42.5    
42.9    
43.3    
43.7    
44.0    
44.4    
44.8    
45.2    
45.6    
46.0    
46.4    
46.8    
47.2    
47.6    
48.0    
48.4    
48.8    
49.2    
49.6    
50.0    
50.4    
50.8    
51.2    
51.6    
52.0    
52.4    
52.8    
53.2    
53.6    
54.0    
54.4    
54.8    
55.2    
55.6    
56.0    
56.3    
56.7    
57.1    
57.5    
57.9    
58.3    
58.7    
59.1    
59.5    
59.9    
60.3    
60.7    
61.1    
61.5    
61.9    
62.3    
62.7    
63.1    
63.5    
63.9    
64.3    
64.7    
65.1    
65.5    
65.9    
66.3    
66.7    
67.1    
67.5    
67.9    
68.3    
68.7    
69.0    
69.4    
69.8    
70.2    
70.6    
71.0    
71.4    
71.8    
72.2    
72.6    
73.0    
73.4    
73.8    
74.2    
74.6    
75.0    
75.4    
75.8    
76.2    
76.6    
77.0    
77.4    
77.8    
78.2    
78.6    
79.0    
79.4    
79.8    
80.2    
80.6    
81.0    
81.3    
81.7    
82.1    
82.5    
82.9    
83.3    
83.7    
84.1    
84.5    
84.9    
85.3    
85.7    
86.1    
86.5    
86.9    
87.3    
87.7    
88.1    
88.5    
88.9    
89.3    
89.7    
90.1    
90.5    
90.9    
91.3    
91.7    
92.1    
92.5    
92.9    
93.3    
93.7    
94.0    
94.4    
94.8    
95.2    
95.6    
96.0    
96.4    
96.8    
97.2    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 33 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 31 predictions persist after filtering for low support