-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_11/scaffold_11_10433180-10665679

-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.49054_t
Valid prediction for Augustus_model.g18975.t1
Valid prediction for snap_scaffold_11-snap.2384-T1
Valid prediction for snap_scaffold_11-snap.2382-T1
Valid prediction for Augustus_model.g18968.t1
Valid prediction for GeneMark_model.49052_t
Valid prediction for snap_scaffold_11-snap.2348-T1
Valid prediction for GeneMark_model.49077_t
Valid prediction for GlimmerHMM_glimmerT_28410-T1
Valid prediction for CodingQuarry_transcript_8201-T1
Valid prediction for Augustus_model.g18972.t1
Valid prediction for GeneMark_model.49072_t
Valid prediction for GeneMark_model.49042_t
Valid prediction for snap_scaffold_11-snap.2380-T1
Valid prediction for GlimmerHMM_glimmerT_28413-T1
Valid prediction for snap_scaffold_11-snap.2344-T1
Valid prediction for HiQ_model.g18961.t1
Valid prediction for GeneMark_model.49048_t
Valid prediction for snap_scaffold_11-snap.2353-T1
Valid prediction for snap_scaffold_11-snap.2385-T1
Valid prediction for GlimmerHMM_glimmerT_28407-T1
Valid prediction for GeneMark_model.49079_t
Valid prediction for Augustus_model.g18978.t1
Valid prediction for GeneMark_model.49067_t
Valid prediction for snap_scaffold_11-snap.2357-T1
Valid prediction for GlimmerHMM_glimmerT_28417-T1
Valid prediction for snap_scaffold_11-snap.2341-T1
Valid prediction for GeneMark_model.49068_t
Valid prediction for GlimmerHMM_glimmerT_28408-T1
Valid prediction for GeneMark_model.49074_t
Valid prediction for Augustus_model.g18964.t1
Valid prediction for snap_scaffold_11-snap.2378-T1
Valid prediction for GeneMark_model.49070_t
Valid prediction for snap_scaffold_11-snap.2377-T1
Valid prediction for GlimmerHMM_glimmerT_28419-T1
Valid prediction for GeneMark_model.49034_t
Valid prediction for GlimmerHMM_glimmerT_28400-T1
Valid prediction for snap_scaffold_11-snap.2366-T1
Valid prediction for GeneMark_model.49031_t
Valid prediction for GeneMark_model.49039_t
Valid prediction for GlimmerHMM_glimmerT_28414-T1
Valid prediction for GeneMark_model.49060_t
Valid prediction for Augustus_model.g18963.t1
Valid prediction for snap_scaffold_11-snap.2376-T1
Valid prediction for GlimmerHMM_glimmerT_28423-T1
Valid prediction for snap_scaffold_11-snap.2365-T1
Valid prediction for snap_scaffold_11-snap.2373-T1
Valid prediction for GeneMark_model.49056_t
Valid prediction for snap_scaffold_11-snap.2364-T1
Valid prediction for GeneMark_model.49045_t
Valid prediction for Augustus_model.g18965.t1
Valid prediction for snap_scaffold_11-snap.2355-T1
Valid prediction for GeneMark_model.49076_t
Valid prediction for GlimmerHMM_glimmerT_28404-T1
Valid prediction for GeneMark_model.49062_t
Valid prediction for GeneMark_model.49041_t
Valid prediction for Augustus_model.g18967.t1
Valid prediction for pasa_asmbl_5910.p1
Valid prediction for Augustus_model.g18977.t1
Valid prediction for snap_scaffold_11-snap.2347-T1
Valid prediction for GeneMark_model.49038_t
Valid prediction for GeneMark_model.49043_t
Valid prediction for Augustus_model.g18974.t1
Valid prediction for GlimmerHMM_glimmerT_28405-T1
Valid prediction for snap_scaffold_11-snap.2370-T1
Valid prediction for GlimmerHMM_glimmerT_28416-T1
Valid prediction for snap_scaffold_11-snap.2372-T1
Valid prediction for Augustus_model.g18966.t1
Valid prediction for snap_scaffold_11-snap.2375-T1
Valid prediction for GeneMark_model.49050_t
Valid prediction for snap_scaffold_11-snap.2360-T1
Valid prediction for snap_scaffold_11-snap.2349-T1
Valid prediction for GlimmerHMM_glimmerT_28411-T1
Valid prediction for GlimmerHMM_glimmerT_28422-T1
Valid prediction for GlimmerHMM_glimmerT_28402-T1
Valid prediction for GeneMark_model.49029_t
Valid prediction for Augustus_model.g18976.t1
Valid prediction for snap_scaffold_11-snap.2383-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_28420-T1
Valid prediction for GeneMark_model.49078_t
Valid prediction for GeneMark_model.49047_t
Valid prediction for GeneMark_model.49046_t
Valid prediction for snap_scaffold_11-snap.2351-T1
Valid prediction for snap_scaffold_11-snap.2340-T1
Valid prediction for Augustus_model.g18959.t1
Valid prediction for GeneMark_model.49037_t
Valid prediction for snap_scaffold_11-snap.2346-T1
Valid prediction for snap_scaffold_11-snap.2369-T1
Valid prediction for snap_scaffold_11-snap.2361-T1
Valid prediction for GeneMark_model.49065_t
Valid prediction for Augustus_model.g18971.t1
Valid prediction for snap_scaffold_11-snap.2342-T1
Valid prediction for GeneMark_model.49057_t
Valid prediction for snap_scaffold_11-snap.2371-T1
Valid prediction for GlimmerHMM_glimmerT_28399-T1
Valid prediction for snap_scaffold_11-snap.2354-T1
Valid prediction for snap_scaffold_11-snap.2367-T1
Valid prediction for GlimmerHMM_glimmerT_28406-T1
Valid prediction for GeneMark_model.49055_t
Valid prediction for snap_scaffold_11-snap.2356-T1
Valid prediction for snap_scaffold_11-snap.2368-T1
Valid prediction for GeneMark_model.49051_t
Valid prediction for GlimmerHMM_glimmerT_28412-T1
Valid prediction for Augustus_model.g18958.t1
Valid prediction for GlimmerHMM_glimmerT_28421-T1
Valid prediction for GeneMark_model.49035_t
Valid prediction for snap_scaffold_11-snap.2362-T1
Valid prediction for snap_scaffold_11-snap.2345-T1
Valid prediction for GeneMark_model.49027_t
Valid prediction for GeneMark_model.49064_t
Valid prediction for GlimmerHMM_glimmerT_28403-T1
Valid prediction for Augustus_model.g18962.t1
Valid prediction for GeneMark_model.49058_t
Valid prediction for snap_scaffold_11-snap.2352-T1
Valid prediction for snap_scaffold_11-snap.2363-T1
Valid prediction for GeneMark_model.49059_t
Valid prediction for snap_scaffold_11-snap.2359-T1
Valid prediction for GeneMark_model.49036_t
Valid prediction for GeneMark_model.49040_t
Valid prediction for GeneMark_model.49033_t
Valid prediction for snap_scaffold_11-snap.2343-T1
Valid prediction for snap_scaffold_11-snap.2386-T1
Valid prediction for snap_scaffold_11-snap.2379-T1
Valid prediction for snap_scaffold_11-snap.2339-T1
Valid prediction for GeneMark_model.49063_t
Valid prediction for snap_scaffold_11-snap.2374-T1
Valid prediction for GeneMark_model.49066_t
Valid prediction for GlimmerHMM_glimmerT_28401-T1
Valid prediction for GeneMark_model.49061_t
Valid prediction for Augustus_model.g18960.t1
Valid prediction for GeneMark_model.49075_t
Valid prediction for Augustus_model.g18969.t1
Valid prediction for GlimmerHMM_glimmerT_28415-T1
Valid prediction for snap_scaffold_11-snap.2358-T1
Valid prediction for GeneMark_model.49073_t
Valid prediction for GeneMark_model.49069_t
Valid prediction for GeneMark_model.49030_t
Valid prediction for snap_scaffold_11-snap.2350-T1
Valid prediction for GlimmerHMM_glimmerT_28418-T1
Valid prediction for GeneMark_model.49071_t
Valid prediction for Augustus_model.g18973.t1
Valid prediction for GeneMark_model.49028_t
Couldn't classify 197866, 198020
Sorry, prediction pasa_asmbl_6976.p1 fails validation.
(TTC)	 TC	197866-198020	GT	CAG
(GAA)	 AG	198408-198498	GT	AGG
(ACG)	 AG	198628-198821	GT	AGG
(TTT)	 AG	199022-199484	CT	GAC
-recovered pasa_asmbl_6976.p1, terminal, 199022, 199484
-recovered pasa_asmbl_6976.p1, internal, 198408, 198498
-recovered pasa_asmbl_6976.p1, internal, 198628, 198821
Valid prediction for GeneMark_model.49032_t
Valid prediction for GlimmerHMM_glimmerT_28409-T1
Valid prediction for snap_scaffold_11-snap.2381-T1
Valid prediction for Augustus_model.g18970.t1
Valid prediction for GlimmerHMM_glimmerT_28424-T1
Valid prediction for GeneMark_model.49053_t
Valid prediction for GeneMark_model.49049_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 55491, rend_intergenic: 52004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63572, rend_intergenic: 62634  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67712, rend_intergenic: 65186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81960, rend_intergenic: 81617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88843, rend_intergenic: 82118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111531, rend_intergenic: 97778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117951, rend_intergenic: 114006  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147433, rend_intergenic: 142773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150483, rend_intergenic: 147628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156151, rend_intergenic: 151535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160704, rend_intergenic: 160435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167973, rend_intergenic: 161136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191982, rend_intergenic: 189623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198652, rend_intergenic: 195043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 232500
-exon list size: 574


building trellis

0.2    
0.3    
0.5    
0.7    
0.9    
1.0    
1.2    
1.4    
1.6    
1.7    
1.9    
2.1    
2.3    
2.4    
2.6    
2.8    
3.0    
3.1    
3.3    
3.5    
3.6    
3.8    
4.0    
4.2    
4.3    
4.5    
4.7    
4.9    
5.0    
5.2    
5.4    
5.6    
5.7    
5.9    
6.1    
6.2    
6.4    
6.6    
6.8    
6.9    
7.1    
7.3    
7.5    
7.6    
7.8    
8.0    
8.2    
8.3    
8.5    
8.7    
8.9    
9.0    
9.2    
9.4    
9.5    
9.7    
9.9    
10.1    
10.2    
10.4    
10.6    
10.8    
10.9    
11.1    
11.3    
11.5    
11.6    
11.8    
12.0    
12.2    
12.3    
12.5    
12.7    
12.8    
13.0    
13.2    
13.4    
13.5    
13.7    
13.9    
14.1    
14.2    
14.4    
14.6    
14.8    
14.9    
15.1    
15.3    
15.5    
15.6    
15.8    
16.0    
16.1    
16.3    
16.5    
16.7    
16.8    
17.0    
17.2    
17.4    
17.5    
17.7    
17.9    
18.1    
18.2    
18.4    
18.6    
18.8    
18.9    
19.1    
19.3    
19.4    
19.6    
19.8    
20.0    
20.1    
20.3    
20.5    
20.7    
20.8    
21.0    
21.2    
21.4    
21.5    
21.7    
21.9    
22.0    
22.2    
22.4    
22.6    
22.7    
22.9    
23.1    
23.3    
23.4    
23.6    
23.8    
24.0    
24.1    
24.3    
24.5    
24.7    
24.8    
25.0    
25.2    
25.3    
25.5    
25.7    
25.9    
26.0    
26.2    
26.4    
26.6    
26.7    
26.9    
27.1    
27.3    
27.4    
27.6    
27.8    
28.0    
28.1    
28.3    
28.5    
28.6    
28.8    
29.0    
29.2    
29.3    
29.5    
29.7    
29.9    
30.0    
30.2    
30.4    
30.6    
30.7    
30.9    
31.1    
31.2    
31.4    
31.6    
31.8    
31.9    
32.1    
32.3    
32.5    
32.6    
32.8    
33.0    
33.2    
33.3    
33.5    
33.7    
33.9    
34.0    
34.2    
34.4    
34.5    
34.7    
34.9    
35.1    
35.2    
35.4    
35.6    
35.8    
35.9    
36.1    
36.3    
36.5    
36.6    
36.8    
37.0    
37.2    
37.3    
37.5    
37.7    
37.8    
38.0    
38.2    
38.4    
38.5    
38.7    
38.9    
39.1    
39.2    
39.4    
39.6    
39.8    
39.9    
40.1    
40.3    
40.5    
40.6    
40.8    
41.0    
41.1    
41.3    
41.5    
41.7    
41.8    
42.0    
42.2    
42.4    
42.5    
42.7    
42.9    
43.1    
43.2    
43.4    
43.6    
43.8    
43.9    
44.1    
44.3    
44.4    
44.6    
44.8    
45.0    
45.1    
45.3    
45.5    
45.7    
45.8    
46.0    
46.2    
46.4    
46.5    
46.7    
46.9    
47.0    
47.2    
47.4    
47.6    
47.7    
47.9    
48.1    
48.3    
48.4    
48.6    
48.8    
49.0    
49.1    
49.3    
49.5    
49.7    
49.8    
50.0    
50.2    
50.3    
50.5    
50.7    
50.9    
51.0    
51.2    
51.4    
51.6    
51.7    
51.9    
52.1    
52.3    
52.4    
52.6    
52.8    
53.0    
53.1    
53.3    
53.5    
53.6    
53.8    
54.0    
54.2    
54.3    
54.5    
54.7    
54.9    
55.0    
55.2    
55.4    
55.6    
55.7    
55.9    
56.1    
56.2    
56.4    
56.6    
56.8    
56.9    
57.1    
57.3    
57.5    
57.6    
57.8    
58.0    
58.2    
58.3    
58.5    
58.7    
58.9    
59.0    
59.2    
59.4    
59.5    
59.7    
59.9    
60.1    
60.2    
60.4    
60.6    
60.8    
60.9    
61.1    
61.3    
61.5    
61.6    
61.8    
62.0    
62.2    
62.3    
62.5    
62.7    
62.8    
63.0    
63.2    
63.4    
63.5    
63.7    
63.9    
64.1    
64.2    
64.4    
64.6    
64.8    
64.9    
65.1    
65.3    
65.5    
65.6    
65.8    
66.0    
66.1    
66.3    
66.5    
66.7    
66.8    
67.0    
67.2    
67.4    
67.5    
67.7    
67.9    
68.1    
68.2    
68.4    
68.6    
68.8    
68.9    
69.1    
69.3    
69.4    
69.6    
69.8    
70.0    
70.1    
70.3    
70.5    
70.7    
70.8    
71.0    
71.2    
71.4    
71.5    
71.7    
71.9    
72.0    
72.2    
72.4    
72.6    
72.7    
72.9    
73.1    
73.3    
73.4    
73.6    
73.8    
74.0    
74.1    
74.3    
74.5    
74.7    
74.8    
75.0    
75.2    
75.3    
75.5    
75.7    
75.9    
76.0    
76.2    
76.4    
76.6    
76.7    
76.9    
77.1    
77.3    
77.4    
77.6    
77.8    
78.0    
78.1    
78.3    
78.5    
78.6    
78.8    
79.0    
79.2    
79.3    
79.5    
79.7    
79.9    
80.0    
80.2    
80.4    
80.6    
80.7    
80.9    
81.1    
81.2    
81.4    
81.6    
81.8    
81.9    
82.1    
82.3    
82.5    
82.6    
82.8    
83.0    
83.2    
83.3    
83.5    
83.7    
83.9    
84.0    
84.2    
84.4    
84.5    
84.7    
84.9    
85.1    
85.2    
85.4    
85.6    
85.8    
85.9    
86.1    
86.3    
86.5    
86.6    
86.8    
87.0    
87.2    
87.3    
87.5    
87.7    
87.8    
88.0    
88.2    
88.4    
88.5    
88.7    
88.9    
89.1    
89.2    
89.4    
89.6    
89.8    
89.9    
90.1    
90.3    
90.5    
90.6    
90.8    
91.0    
91.1    
91.3    
91.5    
91.7    
91.8    
92.0    
92.2    
92.4    
92.5    
92.7    
92.9    
93.1    
93.2    
93.4    
93.6    
93.8    
93.9    
94.1    
94.3    
94.4    
94.6    
94.8    
95.0    
95.1    
95.3    
95.5    
95.7    
95.8    
96.0    
96.2    
96.4    
96.5    
96.7    
96.9    
97.0    
97.2    
97.4    
97.6    
97.7    
97.9    
98.1    
98.3    
98.4    
98.6    
98.8    
99.0    
99.1    
99.3    
99.5    
99.7    
99.8    
-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 55491, rend_intergenic: 52004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63572, rend_intergenic: 62634  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67712, rend_intergenic: 65186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81960, rend_intergenic: 81617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88843, rend_intergenic: 82118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111531, rend_intergenic: 97778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117951, rend_intergenic: 114006  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147433, rend_intergenic: 142773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150483, rend_intergenic: 147628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156151, rend_intergenic: 151535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160704, rend_intergenic: 160435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167973, rend_intergenic: 161136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191982, rend_intergenic: 189623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198652, rend_intergenic: 195043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 27 predictions persist after filtering for low support