-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_1-226439

-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 GlimmerHMM_glimmerT_33841-T1
Valid prediction for snap_scaffold_14-snap.22-T1
Valid prediction for GeneMark_model.58076_t
Valid prediction for GeneMark_model.58085_t
Valid prediction for GeneMark_model.58098_t
Valid prediction for GlimmerHMM_glimmerT_33844-T1
Valid prediction for GeneMark_model.58088_t
Valid prediction for GlimmerHMM_glimmerT_33858-T1
Valid prediction for GeneMark_model.58075_t
Valid prediction for Augustus_model.g22736.t1
Valid prediction for GlimmerHMM_glimmerT_33855-T1
Valid prediction for GlimmerHMM_glimmerT_33824-T1
Valid prediction for GlimmerHMM_glimmerT_33836-T1
Valid prediction for GlimmerHMM_glimmerT_33827-T1
Valid prediction for Augustus_model.g22720.t1
Valid prediction for Augustus_model.g22735.t1
Valid prediction for GlimmerHMM_glimmerT_33830-T1
Valid prediction for snap_scaffold_14-snap.13-T1
Valid prediction for GlimmerHMM_glimmerT_33847-T1
Valid prediction for snap_scaffold_14-snap.12-T1
Valid prediction for Augustus_model.g22709.t1
Valid prediction for snap_scaffold_14-snap.9-T1
Valid prediction for GeneMark_model.58084_t
Valid prediction for snap_scaffold_14-snap.33-T1
Valid prediction for GlimmerHMM_glimmerT_33821-T1
Valid prediction for GlimmerHMM_glimmerT_33829-T1
Valid prediction for snap_scaffold_14-snap.23-T1
Valid prediction for Augustus_model.g22727.t1
Valid prediction for snap_scaffold_14-snap.1-T1
Valid prediction for snap_scaffold_14-snap.11-T1
Valid prediction for Augustus_model.g22731.t1
Valid prediction for GlimmerHMM_glimmerT_33826-T1
Valid prediction for Augustus_model.g22716.t1
Valid prediction for snap_scaffold_14-snap.24-T1
Valid prediction for snap_scaffold_14-snap.18-T1
Valid prediction for GeneMark_model.58081_t
Valid prediction for GlimmerHMM_glimmerT_33839-T1
Valid prediction for GlimmerHMM_glimmerT_33859-T1
Valid prediction for snap_scaffold_14-snap.8-T1
Valid prediction for Augustus_model.g22729.t1
Valid prediction for Augustus_model.g22730.t1
Valid prediction for Augustus_model.g22712.t1
Valid prediction for GeneMark_model.58096_t
Valid prediction for GlimmerHMM_glimmerT_33853-T1
Valid prediction for snap_scaffold_14-snap.21-T1
Valid prediction for snap_scaffold_14-snap.32-T1
Valid prediction for GlimmerHMM_glimmerT_33854-T1
Valid prediction for snap_scaffold_14-snap.28-T1
Valid prediction for GeneMark_model.58079_t
Valid prediction for Augustus_model.g22713.t1
Valid prediction for Augustus_model.g22719.t1
Valid prediction for GlimmerHMM_glimmerT_33860-T1
Valid prediction for snap_scaffold_14-snap.14-T1
Valid prediction for GeneMark_model.58090_t
Valid prediction for GeneMark_model.58093_t
Valid prediction for Augustus_model.g22721.t1
Valid prediction for snap_scaffold_14-snap.34-T1
Valid prediction for Augustus_model.g22734.t1
Valid prediction for snap_scaffold_14-snap.4-T1
Valid prediction for Augustus_model.g22718.t1
Valid prediction for GlimmerHMM_glimmerT_33849-T1
Valid prediction for GeneMark_model.58082_t
Valid prediction for Augustus_model.g22728.t1
Valid prediction for snap_scaffold_14-snap.15-T1
Valid prediction for Augustus_model.g22723.t1
Valid prediction for GlimmerHMM_glimmerT_33833-T1
Valid prediction for GlimmerHMM_glimmerT_33838-T1
Valid prediction for snap_scaffold_14-snap.6-T1
Valid prediction for GlimmerHMM_glimmerT_33852-T1
Valid prediction for GlimmerHMM_glimmerT_33845-T1
Valid prediction for GlimmerHMM_glimmerT_33856-T1
Valid prediction for GeneMark_model.58095_t
Valid prediction for GlimmerHMM_glimmerT_33825-T1
Valid prediction for GlimmerHMM_glimmerT_33832-T1
Valid prediction for GeneMark_model.58072_t
Valid prediction for snap_scaffold_14-snap.31-T1
Valid prediction for snap_scaffold_14-snap.19-T1
Valid prediction for snap_scaffold_14-snap.5-T1
Valid prediction for snap_scaffold_14-snap.35-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 GlimmerHMM_glimmerT_33831-T1
Valid prediction for snap_scaffold_14-snap.37-T1
Valid prediction for snap_scaffold_14-snap.36-T1
Valid prediction for snap_scaffold_14-snap.20-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g22715.t1
Valid prediction for Augustus_model.g22714.t1
Valid prediction for GlimmerHMM_glimmerT_33823-T1
Valid prediction for Augustus_model.g22722.t1
Valid prediction for Augustus_model.g22732.t1
Valid prediction for GeneMark_model.58087_t
Valid prediction for GeneMark_model.58086_t
Valid prediction for GeneMark_model.58099_t
Valid prediction for CodingQuarry_transcript_15476-T1
Couldn't classify 45196, 45386
Couldn't classify 45922, 46044
Sorry, prediction pasa_asmbl_12772.p1 fails validation.
(CAG)	 CT	45196-45386	GT	GGG
(TGG)	 AG	45762-45804	GT	GGG
(ATC)	 AG	45922-46044	GT	CGG
-recovered pasa_asmbl_12772.p1, internal, 45762, 45804
-recovered pasa_asmbl_12772.p1, internal, 45922, 46044
Valid prediction for GlimmerHMM_glimmerT_33828-T1
Valid prediction for GeneMark_model.58077_t
Valid prediction for GlimmerHMM_glimmerT_33822-T1
Valid prediction for Augustus_model.g22725.t1
Valid prediction for snap_scaffold_14-snap.16-T1
Valid prediction for GeneMark_model.58074_t
Valid prediction for GeneMark_model.58073_t
Valid prediction for snap_scaffold_14-snap.26-T1
Valid prediction for GlimmerHMM_glimmerT_33851-T1
Valid prediction for snap_scaffold_14-snap.29-T1
Couldn't classify 50916, 51038
Sorry, prediction pasa_asmbl_12768.p1 fails validation.
(ATG)	 AG	49413-49510	GT	AGG
(TGT)	 AG	49641-49776	GT	AGG
(ATC)	 AG	50916-51038	GT	AGG
-recovered pasa_asmbl_12768.p1, initial, 49413, 49510
-recovered pasa_asmbl_12768.p1, internal, 49413, 49510
-recovered pasa_asmbl_12768.p1, internal, 49641, 49776
-recovered pasa_asmbl_12768.p1, internal, 50916, 51038
Valid prediction for GeneMark_model.58094_t
Valid prediction for Augustus_model.g22711.t1
Valid prediction for snap_scaffold_14-snap.7-T1
Valid prediction for Augustus_model.g22733.t1
Valid prediction for GlimmerHMM_glimmerT_33850-T1
Valid prediction for snap_scaffold_14-snap.3-T1
Couldn't classify 25109, 25150
Sorry, prediction pasa_asmbl_12785.p1 fails validation.
(ATG)	 AA	18987-19037	GT	AGG
(GGT)	 AG	19152-19284	GT	TGG
(AAA)	 AG	20987-21158	GT	AGG
(AAT)	 AG	23927-24027	GT	AGG
(CCA)	 AG	24303-24325	GT	AGG
(AAT)	 AG	25109-25150	CG	AGC
-recovered pasa_asmbl_12785.p1, initial, 18987, 19037
-recovered pasa_asmbl_12785.p1, internal, 19152, 19284
-recovered pasa_asmbl_12785.p1, internal, 20987, 21158
-recovered pasa_asmbl_12785.p1, internal, 23927, 24027
-recovered pasa_asmbl_12785.p1, internal, 24303, 24325
Valid prediction for HiQ_model.g22724.t1
Valid prediction for snap_scaffold_14-snap.17-T1
Valid prediction for GlimmerHMM_glimmerT_33842-T1
Valid prediction for GlimmerHMM_glimmerT_33843-T1
Valid prediction for snap_scaffold_14-snap.10-T1
Couldn't classify 47416, 47490
Couldn't classify 50916, 51038
Sorry, prediction pasa_asmbl_12767.p1 fails validation.
(GGC)	 CT	47416-47490	GT	ATG
(ACT)	 AG	48114-48209	GT	AGG
(TGG)	 AG	48313-48414	GT	AGG
(CCA)	 AG	48639-48800	GT	AGG
(ATG)	 AG	49413-49510	GT	AGG
(TGT)	 AG	49641-49776	GT	AGG
(ATC)	 AG	50916-51038	GT	AGG
-recovered pasa_asmbl_12767.p1, initial, 49413, 49510
-recovered pasa_asmbl_12767.p1, internal, 48114, 48209
-recovered pasa_asmbl_12767.p1, internal, 48313, 48414
-recovered pasa_asmbl_12767.p1, internal, 48639, 48800
-recovered pasa_asmbl_12767.p1, internal, 49413, 49510
-recovered pasa_asmbl_12767.p1, internal, 49641, 49776
-recovered pasa_asmbl_12767.p1, internal, 50916, 51038
Valid prediction for GlimmerHMM_glimmerT_33834-T1
Valid prediction for snap_scaffold_14-snap.25-T1
Valid prediction for GlimmerHMM_glimmerT_33840-T1
Valid prediction for GeneMark_model.58083_t
Valid prediction for GeneMark_model.58080_t
Valid prediction for GlimmerHMM_glimmerT_33846-T1
Valid prediction for GeneMark_model.58092_t
Valid prediction for Augustus_model.g22710.t1
Valid prediction for Augustus_model.g22726.t1
Valid prediction for GeneMark_model.58089_t
Valid prediction for GlimmerHMM_glimmerT_33837-T1
Valid prediction for snap_scaffold_14-snap.30-T1
Couldn't classify 42270, 43187
Sorry, prediction pasa_asmbl_12773.p1 fails validation.
(AAG)	 CC	42270-43187	GC	AGG
Valid prediction for snap_scaffold_14-snap.27-T1
Valid prediction for GlimmerHMM_glimmerT_33835-T1
Valid prediction for Augustus_model.g22717.t1
Valid prediction for GlimmerHMM_glimmerT_33857-T1
Valid prediction for GlimmerHMM_glimmerT_33848-T1
Couldn't classify 70976, 71011
Sorry, prediction pasa_asmbl_12758.p1 fails validation.
(GCA)	 CT	70976-71011	GT	ATG
(ATG)	 AG	71707-71778	GT	AGG
(TTG)	 AG	71938-72007	GT	AGG
(TGC)	 AG	72164-72261	GT	AAG
(GTG)	 AG	72351-72407	GT	ATG
(GTT)	 AG	72676-72906	GT	AGG
(GGT)	 AG	73306-73432	GT	GGG
(GTG)	 AG	73566-73756	GT	AGG
(GTA)	 AG	74177-74275	GT	AGG
(GCC)	 AG	74425-74535	GT	AGG
(GGG)	 AG	75077-75163	GT	AGG
(GTG)	 AG	75573-75626	AT	AAA
-recovered pasa_asmbl_12758.p1, initial, 71707, 71778
-recovered pasa_asmbl_12758.p1, terminal, 75573, 75626
-recovered pasa_asmbl_12758.p1, internal, 71707, 71778
-recovered pasa_asmbl_12758.p1, internal, 71938, 72007
-recovered pasa_asmbl_12758.p1, internal, 72164, 72261
-recovered pasa_asmbl_12758.p1, internal, 72351, 72407
-recovered pasa_asmbl_12758.p1, internal, 72676, 72906
-recovered pasa_asmbl_12758.p1, internal, 73306, 73432
-recovered pasa_asmbl_12758.p1, internal, 73566, 73756
-recovered pasa_asmbl_12758.p1, internal, 74177, 74275
-recovered pasa_asmbl_12758.p1, internal, 74425, 74535
-recovered pasa_asmbl_12758.p1, internal, 75077, 75163
Valid prediction for snap_scaffold_14-snap.2-T1

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

-building trellis in range 1 - 226439
-exon list size: 423


building trellis

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5.9    
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9.9    
10.1    
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10.6    
10.8    
11.1    
11.3    
11.5    
11.8    
12.0    
12.2    
12.5    
12.7    
12.9    
13.2    
13.4    
13.6    
13.9    
14.1    
14.4    
14.6    
14.8    
15.1    
15.3    
15.5    
15.8    
16.0    
16.2    
16.5    
16.7    
16.9    
17.2    
17.4    
17.6    
17.9    
18.1    
18.4    
18.6    
18.8    
19.1    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
20.9    
21.2    
21.4    
21.6    
21.9    
22.1    
22.4    
22.6    
22.8    
23.1    
23.3    
23.5    
23.8    
24.0    
24.2    
24.5    
24.7    
24.9    
25.2    
25.4    
25.6    
25.9    
26.1    
26.4    
26.6    
26.8    
27.1    
27.3    
27.5    
27.8    
28.0    
28.2    
28.5    
28.7    
28.9    
29.2    
29.4    
29.6    
29.9    
30.1    
30.4    
30.6    
30.8    
31.1    
31.3    
31.5    
31.8    
32.0    
32.2    
32.5    
32.7    
32.9    
33.2    
33.4    
33.6    
33.9    
34.1    
34.4    
34.6    
34.8    
35.1    
35.3    
35.5    
35.8    
36.0    
36.2    
36.5    
36.7    
36.9    
37.2    
37.4    
37.6    
37.9    
38.1    
38.4    
38.6    
38.8    
39.1    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
40.9    
41.2    
41.4    
41.6    
41.9    
42.1    
42.4    
42.6    
42.8    
43.1    
43.3    
43.5    
43.8    
44.0    
44.2    
44.5    
44.7    
44.9    
45.2    
45.4    
45.6    
45.9    
46.1    
46.4    
46.6    
46.8    
47.1    
47.3    
47.5    
47.8    
48.0    
48.2    
48.5    
48.7    
48.9    
49.2    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.8    
51.1    
51.3    
51.5    
51.8    
52.0    
52.2    
52.5    
52.7    
52.9    
53.2    
53.4    
53.6    
53.9    
54.1    
54.4    
54.6    
54.8    
55.1    
55.3    
55.5    
55.8    
56.0    
56.2    
56.5    
56.7    
56.9    
57.2    
57.4    
57.6    
57.9    
58.1    
58.4    
58.6    
58.8    
59.1    
59.3    
59.5    
59.8    
60.0    
60.2    
60.5    
60.7    
60.9    
61.2    
61.4    
61.6    
61.9    
62.1    
62.4    
62.6    
62.8    
63.1    
63.3    
63.5    
63.8    
64.0    
64.2    
64.5    
64.7    
64.9    
65.2    
65.4    
65.6    
65.9    
66.1    
66.4    
66.6    
66.8    
67.1    
67.3    
67.5    
67.8    
68.0    
68.2    
68.5    
68.7    
68.9    
69.2    
69.4    
69.6    
69.9    
70.1    
70.4    
70.6    
70.8    
71.1    
71.3    
71.5    
71.8    
72.0    
72.2    
72.5    
72.7    
72.9    
73.2    
73.4    
73.6    
73.9    
74.1    
74.4    
74.6    
74.8    
75.1    
75.3    
75.5    
75.8    
76.0    
76.2    
76.5    
76.7    
76.9    
77.2    
77.4    
77.6    
77.9    
78.1    
78.4    
78.6    
78.8    
79.1    
79.3    
79.5    
79.8    
80.0    
80.2    
80.5    
80.7    
80.9    
81.2    
81.4    
81.6    
81.9    
82.1    
82.4    
82.6    
82.8    
83.1    
83.3    
83.5    
83.8    
84.0    
84.2    
84.5    
84.7    
84.9    
85.2    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
86.8    
87.1    
87.3    
87.5    
87.8    
88.0    
88.2    
88.5    
88.7    
88.9    
89.2    
89.4    
89.6    
89.9    
90.1    
90.4    
90.6    
90.8    
91.1    
91.3    
91.5    
91.8    
92.0    
92.2    
92.5    
92.7    
92.9    
93.2    
93.4    
93.6    
93.9    
94.1    
94.4    
94.6    
94.8    
95.1    
95.3    
95.5    
95.8    
96.0    
96.2    
96.5    
96.7    
96.9    
97.2    
97.4    
97.6    
97.9    
98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 45 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 43 predictions persist after filtering for low support