-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_1158099-1314667

-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_7-snap.274-T1
Valid prediction for GeneMark_model.29037_t
Valid prediction for GlimmerHMM_glimmerT_17254-T1
Valid prediction for GeneMark_model.29031_t
Valid prediction for Augustus_model.g11567.t1
Valid prediction for pasa_asmbl_50457.p1
Valid prediction for snap_scaffold_7-snap.303-T1
Valid prediction for GlimmerHMM_glimmerT_17256-T1
Valid prediction for GlimmerHMM_glimmerT_17253-T1
Valid prediction for GeneMark_model.29035_t
Valid prediction for GeneMark_model.29065_t
Valid prediction for GeneMark_model.29042_t
Valid prediction for snap_scaffold_7-snap.308-T1
Valid prediction for GlimmerHMM_glimmerT_17260-T1
Valid prediction for Augustus_model.g11566.t1
Valid prediction for GlimmerHMM_glimmerT_17257-T1
Valid prediction for snap_scaffold_7-snap.300-T1
Valid prediction for snap_scaffold_7-snap.295-T1
Valid prediction for GlimmerHMM_glimmerT_17251-T1
Valid prediction for GeneMark_model.29024_t
Valid prediction for GlimmerHMM_glimmerT_17250-T1
Valid prediction for GeneMark_model.29040_t
Valid prediction for GlimmerHMM_glimmerT_17258-T1
Valid prediction for GeneMark_model.29053_t
Couldn't classify 66560, 66688
Couldn't classify 68728, 69192
Sorry, prediction pasa_asmbl_50466.p1 fails validation.
(GTT)	 AG	66560-66688	GT	AGG
(AAT)	 AG	67851-68000	GT	AGG
(TGT)	 AG	68728-69192	CC	CCC
-recovered pasa_asmbl_50466.p1, internal, 66560, 66688
-recovered pasa_asmbl_50466.p1, internal, 67851, 68000
Valid prediction for GlimmerHMM_glimmerT_17248-T1
Couldn't classify 24770, 24798
Couldn't classify 38935, 39024
Sorry, prediction pasa_asmbl_50459.p1 fails validation.
(CTG)	 CT	24770-24798	GT	AAG
(CCT)	 AG	26995-27051	GT	GAG
(GTC)	 AG	27465-27528	GT	TAG
(CCA)	 AG	28962-29036	GT	CAG
(GAG)	 AG	29264-29408	GT	CGG
(GTA)	 AG	30025-30143	GT	AGG
(AGC)	 AG	31808-31891	GT	AGG
(ATC)	 AG	34314-34429	GT	AGG
(ACT)	 AG	34596-34768	GT	AGG
(GCC)	 AG	37455-37594	GT	AGG
(GGA)	 AG	38935-39024	GC	CCG
-recovered pasa_asmbl_50459.p1, internal, 26995, 27051
-recovered pasa_asmbl_50459.p1, internal, 27465, 27528
-recovered pasa_asmbl_50459.p1, internal, 28962, 29036
-recovered pasa_asmbl_50459.p1, internal, 29264, 29408
-recovered pasa_asmbl_50459.p1, internal, 30025, 30143
-recovered pasa_asmbl_50459.p1, internal, 31808, 31891
-recovered pasa_asmbl_50459.p1, internal, 34314, 34429
-recovered pasa_asmbl_50459.p1, internal, 34596, 34768
-recovered pasa_asmbl_50459.p1, internal, 37455, 37594
-recovered pasa_asmbl_50459.p1, internal, 38935, 39024
Valid prediction for GeneMark_model.29062_t
Valid prediction for snap_scaffold_7-snap.282-T1
Valid prediction for Augustus_model.g11563.t1
Valid prediction for snap_scaffold_7-snap.287-T1
Valid prediction for Augustus_model.g11561.t1
Valid prediction for GeneMark_model.29063_t
Valid prediction for GeneMark_model.29026_t
Valid prediction for GeneMark_model.29048_t
Valid prediction for GeneMark_model.29054_t
Valid prediction for Augustus_model.g11560.t1
Valid prediction for snap_scaffold_7-snap.292-T1
Valid prediction for Augustus_model.g11564.t1
Valid prediction for GeneMark_model.29067_t
Valid prediction for GeneMark_model.29038_t
Valid prediction for snap_scaffold_7-snap.291-T1
Valid prediction for GeneMark_model.29041_t
Valid prediction for snap_scaffold_7-snap.299-T1
Valid prediction for HiQ_model.g11558.t1
Valid prediction for GeneMark_model.29046_t
Valid prediction for GlimmerHMM_glimmerT_17265-T1
Valid prediction for GeneMark_model.29029_t
Valid prediction for GeneMark_model.29060_t
Valid prediction for pasa_asmbl_50478.p3
Valid prediction for GeneMark_model.29058_t
Valid prediction for snap_scaffold_7-snap.296-T1
Valid prediction for snap_scaffold_7-snap.278-T1
Valid prediction for Augustus_model.g11562.t1
Valid prediction for snap_scaffold_7-snap.294-T1
Valid prediction for Augustus_model.g11569.t1
Valid prediction for snap_scaffold_7-snap.306-T1
Valid prediction for GeneMark_model.29033_t
Valid prediction for GlimmerHMM_glimmerT_17262-T1
Valid prediction for GeneMark_model.29069_t
Valid prediction for GeneMark_model.29051_t
Valid prediction for snap_scaffold_7-snap.297-T1
Valid prediction for GlimmerHMM_glimmerT_17263-T1
Valid prediction for GeneMark_model.29044_t
Valid prediction for GlimmerHMM_glimmerT_17252-T1
Valid prediction for CodingQuarry_transcript_57278-T1
Valid prediction for Augustus_model.g11571.t1
Valid prediction for snap_scaffold_7-snap.283-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_7-snap.276-T1
Valid prediction for Augustus_model.g11568.t1
Valid prediction for GeneMark_model.29070_t
Valid prediction for GlimmerHMM_glimmerT_17261-T1
Valid prediction for GeneMark_model.29036_t
Valid prediction for GeneMark_model.29028_t
Valid prediction for GeneMark_model.29034_t
Valid prediction for GlimmerHMM_glimmerT_17259-T1
Valid prediction for GlimmerHMM_glimmerT_17249-T1
Valid prediction for snap_scaffold_7-snap.293-T1
Valid prediction for snap_scaffold_7-snap.289-T1
Valid prediction for GeneMark_model.29032_t
Valid prediction for snap_scaffold_7-snap.301-T1
Valid prediction for snap_scaffold_7-snap.288-T1
Valid prediction for snap_scaffold_7-snap.281-T1
Valid prediction for GlimmerHMM_glimmerT_17266-T1
Valid prediction for Augustus_model.g11570.t1
Valid prediction for snap_scaffold_7-snap.302-T1
Valid prediction for GeneMark_model.29049_t
Valid prediction for GlimmerHMM_glimmerT_17264-T1
Valid prediction for GeneMark_model.29030_t
Valid prediction for GeneMark_model.29027_t
Valid prediction for snap_scaffold_7-snap.305-T1
Valid prediction for GlimmerHMM_glimmerT_17255-T1
Valid prediction for GeneMark_model.29039_t
Valid prediction for GeneMark_model.29043_t
Valid prediction for snap_scaffold_7-snap.279-T1
Valid prediction for Augustus_model.g11565.t1
Valid prediction for GeneMark_model.29059_t
Valid prediction for GeneMark_model.29050_t
Valid prediction for GeneMark_model.29052_t
Valid prediction for GeneMark_model.29068_t
Valid prediction for snap_scaffold_7-snap.307-T1
Valid prediction for Augustus_model.g11572.t1
Valid prediction for GeneMark_model.29057_t
Valid prediction for snap_scaffold_7-snap.290-T1
Valid prediction for snap_scaffold_7-snap.298-T1
Valid prediction for snap_scaffold_7-snap.285-T1
Valid prediction for GlimmerHMM_glimmerT_17267-T1
Valid prediction for GeneMark_model.29047_t
Valid prediction for GeneMark_model.29066_t
Valid prediction for Augustus_model.g11559.t1
Valid prediction for GeneMark_model.29045_t
Valid prediction for GeneMark_model.29061_t
Valid prediction for snap_scaffold_7-snap.284-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.286-T1
Valid prediction for snap_scaffold_7-snap.304-T1
Valid prediction for snap_scaffold_7-snap.280-T1
Valid prediction for snap_scaffold_7-snap.277-T1
Valid prediction for snap_scaffold_7-snap.275-T1
Valid prediction for GeneMark_model.29064_t
Valid prediction for GeneMark_model.29055_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12495, rend_intergenic: 5111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39093, rend_intergenic: 22780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55032, rend_intergenic: 47874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76407, rend_intergenic: 63238  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102761, rend_intergenic: 96049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125720, rend_intergenic: 124610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131387, rend_intergenic: 131096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151011, rend_intergenic: 148469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156569
-exon list size: 602


building trellis

0.2    
0.3    
0.5    
0.7    
0.8    
1.0    
1.2    
1.3    
1.5    
1.7    
1.8    
2.0    
2.2    
2.3    
2.5    
2.6    
2.8    
3.0    
3.1    
3.3    
3.5    
3.6    
3.8    
4.0    
4.1    
4.3    
4.5    
4.6    
4.8    
5.0    
5.1    
5.3    
5.5    
5.6    
5.8    
6.0    
6.1    
6.3    
6.5    
6.6    
6.8    
7.0    
7.1    
7.3    
7.5    
7.6    
7.8    
7.9    
8.1    
8.3    
8.4    
8.6    
8.8    
8.9    
9.1    
9.3    
9.4    
9.6    
9.8    
9.9    
10.1    
10.3    
10.4    
10.6    
10.8    
10.9    
11.1    
11.3    
11.4    
11.6    
11.8    
11.9    
12.1    
12.3    
12.4    
12.6    
12.7    
12.9    
13.1    
13.2    
13.4    
13.6    
13.7    
13.9    
14.1    
14.2    
14.4    
14.6    
14.7    
14.9    
15.1    
15.2    
15.4    
15.6    
15.7    
15.9    
16.1    
16.2    
16.4    
16.6    
16.7    
16.9    
17.1    
17.2    
17.4    
17.5    
17.7    
17.9    
18.0    
18.2    
18.4    
18.5    
18.7    
18.9    
19.0    
19.2    
19.4    
19.5    
19.7    
19.9    
20.0    
20.2    
20.4    
20.5    
20.7    
20.9    
21.0    
21.2    
21.4    
21.5    
21.7    
21.9    
22.0    
22.2    
22.4    
22.5    
22.7    
22.8    
23.0    
23.2    
23.3    
23.5    
23.7    
23.8    
24.0    
24.2    
24.3    
24.5    
24.7    
24.8    
25.0    
25.2    
25.3    
25.5    
25.7    
25.8    
26.0    
26.2    
26.3    
26.5    
26.7    
26.8    
27.0    
27.2    
27.3    
27.5    
27.6    
27.8    
28.0    
28.1    
28.3    
28.5    
28.6    
28.8    
29.0    
29.1    
29.3    
29.5    
29.6    
29.8    
30.0    
30.1    
30.3    
30.5    
30.6    
30.8    
31.0    
31.1    
31.3    
31.5    
31.6    
31.8    
32.0    
32.1    
32.3    
32.5    
32.6    
32.8    
32.9    
33.1    
33.3    
33.4    
33.6    
33.8    
33.9    
34.1    
34.3    
34.4    
34.6    
34.8    
34.9    
35.1    
35.3    
35.4    
35.6    
35.8    
35.9    
36.1    
36.3    
36.4    
36.6    
36.8    
36.9    
37.1    
37.3    
37.4    
37.6    
37.7    
37.9    
38.1    
38.2    
38.4    
38.6    
38.7    
38.9    
39.1    
39.2    
39.4    
39.6    
39.7    
39.9    
40.1    
40.2    
40.4    
40.6    
40.7    
40.9    
41.1    
41.2    
41.4    
41.6    
41.7    
41.9    
42.1    
42.2    
42.4    
42.5    
42.7    
42.9    
43.0    
43.2    
43.4    
43.5    
43.7    
43.9    
44.0    
44.2    
44.4    
44.5    
44.7    
44.9    
45.0    
45.2    
45.4    
45.5    
45.7    
45.9    
46.0    
46.2    
46.4    
46.5    
46.7    
46.9    
47.0    
47.2    
47.4    
47.5    
47.7    
47.8    
48.0    
48.2    
48.3    
48.5    
48.7    
48.8    
49.0    
49.2    
49.3    
49.5    
49.7    
49.8    
50.0    
50.2    
50.3    
50.5    
50.7    
50.8    
51.0    
51.2    
51.3    
51.5    
51.7    
51.8    
52.0    
52.2    
52.3    
52.5    
52.6    
52.8    
53.0    
53.1    
53.3    
53.5    
53.6    
53.8    
54.0    
54.1    
54.3    
54.5    
54.6    
54.8    
55.0    
55.1    
55.3    
55.5    
55.6    
55.8    
56.0    
56.1    
56.3    
56.5    
56.6    
56.8    
57.0    
57.1    
57.3    
57.5    
57.6    
57.8    
57.9    
58.1    
58.3    
58.4    
58.6    
58.8    
58.9    
59.1    
59.3    
59.4    
59.6    
59.8    
59.9    
60.1    
60.3    
60.4    
60.6    
60.8    
60.9    
61.1    
61.3    
61.4    
61.6    
61.8    
61.9    
62.1    
62.3    
62.4    
62.6    
62.7    
62.9    
63.1    
63.2    
63.4    
63.6    
63.7    
63.9    
64.1    
64.2    
64.4    
64.6    
64.7    
64.9    
65.1    
65.2    
65.4    
65.6    
65.7    
65.9    
66.1    
66.2    
66.4    
66.6    
66.7    
66.9    
67.1    
67.2    
67.4    
67.5    
67.7    
67.9    
68.0    
68.2    
68.4    
68.5    
68.7    
68.9    
69.0    
69.2    
69.4    
69.5    
69.7    
69.9    
70.0    
70.2    
70.4    
70.5    
70.7    
70.9    
71.0    
71.2    
71.4    
71.5    
71.7    
71.9    
72.0    
72.2    
72.4    
72.5    
72.7    
72.8    
73.0    
73.2    
73.3    
73.5    
73.7    
73.8    
74.0    
74.2    
74.3    
74.5    
74.7    
74.8    
75.0    
75.2    
75.3    
75.5    
75.7    
75.8    
76.0    
76.2    
76.3    
76.5    
76.7    
76.8    
77.0    
77.2    
77.3    
77.5    
77.6    
77.8    
78.0    
78.1    
78.3    
78.5    
78.6    
78.8    
79.0    
79.1    
79.3    
79.5    
79.6    
79.8    
80.0    
80.1    
80.3    
80.5    
80.6    
80.8    
81.0    
81.1    
81.3    
81.5    
81.6    
81.8    
82.0    
82.1    
82.3    
82.5    
82.6    
82.8    
82.9    
83.1    
83.3    
83.4    
83.6    
83.8    
83.9    
84.1    
84.3    
84.4    
84.6    
84.8    
84.9    
85.1    
85.3    
85.4    
85.6    
85.8    
85.9    
86.1    
86.3    
86.4    
86.6    
86.8    
86.9    
87.1    
87.3    
87.4    
87.6    
87.7    
87.9    
88.1    
88.2    
88.4    
88.6    
88.7    
88.9    
89.1    
89.2    
89.4    
89.6    
89.7    
89.9    
90.1    
90.2    
90.4    
90.6    
90.7    
90.9    
91.1    
91.2    
91.4    
91.6    
91.7    
91.9    
92.1    
92.2    
92.4    
92.5    
92.7    
92.9    
93.0    
93.2    
93.4    
93.5    
93.7    
93.9    
94.0    
94.2    
94.4    
94.5    
94.7    
94.9    
95.0    
95.2    
95.4    
95.5    
95.7    
95.9    
96.0    
96.2    
96.4    
96.5    
96.7    
96.9    
97.0    
97.2    
97.4    
97.5    
97.7    
97.8    
98.0    
98.2    
98.3    
98.5    
98.7    
98.8    
99.0    
99.2    
99.3    
99.5    
99.7    
99.8    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 12495, rend_intergenic: 5111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39093, rend_intergenic: 22780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55032, rend_intergenic: 47874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76407, rend_intergenic: 63238  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102761, rend_intergenic: 96049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125720, rend_intergenic: 124610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131387, rend_intergenic: 131096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151011, rend_intergenic: 148469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support