-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_13/scaffold_13_10321724-10518936

-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_13-snap.1910-T1
Valid prediction for Augustus_model.g21543.t1
Valid prediction for snap_scaffold_13-snap.1918-T1
Valid prediction for Augustus_model.g21536.t1
Valid prediction for snap_scaffold_13-snap.1932-T1
Valid prediction for snap_scaffold_13-snap.1895-T1
Valid prediction for snap_scaffold_13-snap.1925-T1
Valid prediction for GlimmerHMM_glimmerT_32253-T1
Valid prediction for GlimmerHMM_glimmerT_32249-T1
Valid prediction for GlimmerHMM_glimmerT_32272-T1
Valid prediction for Augustus_model.g21532.t1
Valid prediction for snap_scaffold_13-snap.1933-T1
Valid prediction for snap_scaffold_13-snap.1915-T1
Valid prediction for GlimmerHMM_glimmerT_32246-T1
Valid prediction for snap_scaffold_13-snap.1903-T1
Valid prediction for Augustus_model.g21538.t1
Valid prediction for GlimmerHMM_glimmerT_32257-T1
Valid prediction for snap_scaffold_13-snap.1916-T1
Valid prediction for snap_scaffold_13-snap.1906-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_32245-T1
Valid prediction for snap_scaffold_13-snap.1938-T1
Valid prediction for GlimmerHMM_glimmerT_32264-T1
Valid prediction for GlimmerHMM_glimmerT_32259-T1
Valid prediction for snap_scaffold_13-snap.1930-T1
Valid prediction for GlimmerHMM_glimmerT_32270-T1
Valid prediction for snap_scaffold_13-snap.1936-T1
Valid prediction for Augustus_model.g21537.t1
Valid prediction for snap_scaffold_13-snap.1901-T1
Valid prediction for GlimmerHMM_glimmerT_32260-T1
Valid prediction for GlimmerHMM_glimmerT_32261-T1
Couldn't classify 114883, 115008
Sorry, prediction pasa_asmbl_11240.p2 fails validation.
(ATG)	 GT	111546-111575	GT	AAG
(ACG)	 AG	111734-111776	GT	TGG
(CCC)	 AG	113754-113875	GT	AGG
(AGA)	 AG	114883-115008	TT	GGT
-recovered pasa_asmbl_11240.p2, initial, 111546, 111575
-recovered pasa_asmbl_11240.p2, internal, 111734, 111776
-recovered pasa_asmbl_11240.p2, internal, 113754, 113875
Couldn't classify 119351, 119535
Sorry, prediction pasa_asmbl_11241.p2 fails validation.
(GGA)	 CA	119351-119535	GT	AAG
(TGG)	 AG	120252-120307	GT	TGG
(AGA)	 AG	120732-120853	GG	AAG
-recovered pasa_asmbl_11241.p2, terminal, 120732, 120853
-recovered pasa_asmbl_11241.p2, internal, 120252, 120307
Valid prediction for snap_scaffold_13-snap.1929-T1
Valid prediction for GlimmerHMM_glimmerT_32244-T1
Valid prediction for snap_scaffold_13-snap.1898-T1
Valid prediction for snap_scaffold_13-snap.1926-T1
Valid prediction for Augustus_model.g21534.t1
Valid prediction for snap_scaffold_13-snap.1935-T1
Valid prediction for snap_scaffold_13-snap.1899-T1
Valid prediction for Augustus_model.g21533.t1
Valid prediction for snap_scaffold_13-snap.1913-T1
Valid prediction for GlimmerHMM_glimmerT_32268-T1
Valid prediction for GlimmerHMM_glimmerT_32251-T1
Valid prediction for Augustus_model.g21539.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_32274-T1
Valid prediction for GlimmerHMM_glimmerT_32252-T1
Valid prediction for snap_scaffold_13-snap.1909-T1
Valid prediction for GlimmerHMM_glimmerT_32255-T1
Valid prediction for snap_scaffold_13-snap.1902-T1
Valid prediction for GlimmerHMM_glimmerT_32247-T1
Valid prediction for GlimmerHMM_glimmerT_32254-T1
Valid prediction for Augustus_model.g21544.t1
Valid prediction for GlimmerHMM_glimmerT_32271-T1
Valid prediction for snap_scaffold_13-snap.1905-T1
Valid prediction for Augustus_model.g21542.t1
Valid prediction for snap_scaffold_13-snap.1924-T1
Valid prediction for GlimmerHMM_glimmerT_32267-T1
Valid prediction for GlimmerHMM_glimmerT_32262-T1
Valid prediction for GlimmerHMM_glimmerT_32266-T1
Valid prediction for snap_scaffold_13-snap.1914-T1
Valid prediction for snap_scaffold_13-snap.1900-T1
Valid prediction for GlimmerHMM_glimmerT_32258-T1
Valid prediction for snap_scaffold_13-snap.1931-T1
Valid prediction for snap_scaffold_13-snap.1917-T1
Valid prediction for GlimmerHMM_glimmerT_32256-T1
Valid prediction for GlimmerHMM_glimmerT_32248-T1
Valid prediction for Augustus_model.g21535.t1
Valid prediction for snap_scaffold_13-snap.1894-T1
Valid prediction for snap_scaffold_13-snap.1897-T1
Valid prediction for snap_scaffold_13-snap.1912-T1
Valid prediction for Augustus_model.g21541.t1
Valid prediction for Augustus_model.g21545.t1
Valid prediction for snap_scaffold_13-snap.1908-T1
Valid prediction for snap_scaffold_13-snap.1904-T1
Valid prediction for snap_scaffold_13-snap.1923-T1
Valid prediction for GlimmerHMM_glimmerT_32273-T1
Valid prediction for snap_scaffold_13-snap.1919-T1
Valid prediction for GlimmerHMM_glimmerT_32265-T1
Valid prediction for snap_scaffold_13-snap.1921-T1
Valid prediction for snap_scaffold_13-snap.1927-T1
Valid prediction for snap_scaffold_13-snap.1907-T1
Valid prediction for snap_scaffold_13-snap.1928-T1
Valid prediction for snap_scaffold_13-snap.1934-T1
Valid prediction for snap_scaffold_13-snap.1911-T1
Valid prediction for snap_scaffold_13-snap.1937-T1
Valid prediction for GlimmerHMM_glimmerT_32263-T1
Valid prediction for GlimmerHMM_glimmerT_32250-T1
Valid prediction for Augustus_model.g21540.t1
Valid prediction for snap_scaffold_13-snap.1922-T1
Valid prediction for snap_scaffold_13-snap.1920-T1
Valid prediction for GlimmerHMM_glimmerT_32269-T1
Valid prediction for snap_scaffold_13-snap.1896-T1
Valid prediction for GlimmerHMM_glimmerT_32275-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18251, rend_intergenic: 11247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22151, rend_intergenic: 18605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35017, rend_intergenic: 25898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40794, rend_intergenic: 39673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42824, rend_intergenic: 40920  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55324, rend_intergenic: 42856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61374, rend_intergenic: 55610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69640, rend_intergenic: 61397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92684, rend_intergenic: 81495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105100, rend_intergenic: 93056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108938, rend_intergenic: 105234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125874, rend_intergenic: 115963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130967, rend_intergenic: 126215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163464, rend_intergenic: 159158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179017, rend_intergenic: 173591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185397, rend_intergenic: 185172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186305, rend_intergenic: 185897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196834, rend_intergenic: 191365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 197213
-exon list size: 340


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.0    
2.3    
2.6    
2.9    
3.2    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.4    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.4    
16.7    
17.0    
17.3    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.5    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.5    
67.8    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.7    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.4    
97.7    
98.0    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 18251, rend_intergenic: 11247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22151, rend_intergenic: 18605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35017, rend_intergenic: 25898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40794, rend_intergenic: 39673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42824, rend_intergenic: 40920  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55324, rend_intergenic: 42856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61374, rend_intergenic: 55610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69640, rend_intergenic: 61397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92684, rend_intergenic: 81495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105100, rend_intergenic: 93056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108938, rend_intergenic: 105234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125874, rend_intergenic: 115963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130967, rend_intergenic: 126215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163464, rend_intergenic: 159158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179017, rend_intergenic: 173591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185397, rend_intergenic: 185172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186305, rend_intergenic: 185897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196834, rend_intergenic: 191365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support