-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_7588214-7799952

-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_57656-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_57643-T1
Valid prediction for snap_scaffold_27-snap.1813-T1
Valid prediction for GlimmerHMM_glimmerT_57642-T1
Valid prediction for snap_scaffold_27-snap.1816-T1
Valid prediction for snap_scaffold_27-snap.1808-T1
Valid prediction for snap_scaffold_27-snap.1789-T1
Valid prediction for pasa_asmbl_36473.p1
Couldn't classify 17440, 17566
Sorry, prediction pasa_asmbl_36474.p1 fails validation.
(AAC)	 AC	17440-17566	GT	CGG
(GTG)	 AG	18490-19028	GC	AGG
(GCC)	 AG	19173-19736	GT	AGG
(ATC)	 AG	20484-20615	AC	GAA
-recovered pasa_asmbl_36474.p1, terminal, 20484, 20615
-recovered pasa_asmbl_36474.p1, internal, 18490, 19028
-recovered pasa_asmbl_36474.p1, internal, 19173, 19736
Valid prediction for CodingQuarry_transcript_41955-T1
Valid prediction for GlimmerHMM_glimmerT_57663-T1
Valid prediction for snap_scaffold_27-snap.1820-T1
Valid prediction for snap_scaffold_27-snap.1792-T1
Valid prediction for GlimmerHMM_glimmerT_57659-T1
Valid prediction for snap_scaffold_27-snap.1829-T1
Valid prediction for snap_scaffold_27-snap.1812-T1
Valid prediction for GlimmerHMM_glimmerT_57644-T1
Valid prediction for snap_scaffold_27-snap.1821-T1
Valid prediction for snap_scaffold_27-snap.1793-T1
Valid prediction for GlimmerHMM_glimmerT_57654-T1
Valid prediction for Augustus_model.g38213.t1
Valid prediction for snap_scaffold_27-snap.1799-T1
Valid prediction for snap_scaffold_27-snap.1795-T1
Valid prediction for Augustus_model.g38210.t1
Valid prediction for snap_scaffold_27-snap.1788-T1
Valid prediction for Augustus_model.g38206.t1
Valid prediction for snap_scaffold_27-snap.1796-T1
Valid prediction for HiQ_model.g38205.t1
Valid prediction for snap_scaffold_27-snap.1824-T1
Valid prediction for snap_scaffold_27-snap.1827-T1
Valid prediction for snap_scaffold_27-snap.1807-T1
Valid prediction for snap_scaffold_27-snap.1802-T1
Valid prediction for GlimmerHMM_glimmerT_57647-T1
Valid prediction for GlimmerHMM_glimmerT_57653-T1
Valid prediction for snap_scaffold_27-snap.1810-T1
Valid prediction for snap_scaffold_27-snap.1814-T1
Valid prediction for snap_scaffold_27-snap.1804-T1
Valid prediction for GlimmerHMM_glimmerT_57651-T1
Valid prediction for GlimmerHMM_glimmerT_57668-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_57662-T1
Valid prediction for snap_scaffold_27-snap.1805-T1
Valid prediction for snap_scaffold_27-snap.1817-T1
Valid prediction for snap_scaffold_27-snap.1815-T1
Valid prediction for snap_scaffold_27-snap.1818-T1
Valid prediction for GlimmerHMM_glimmerT_57666-T1
Valid prediction for Augustus_model.g38207.t1
Valid prediction for snap_scaffold_27-snap.1800-T1
Valid prediction for GlimmerHMM_glimmerT_57646-T1
Valid prediction for GlimmerHMM_glimmerT_57658-T1
Valid prediction for GlimmerHMM_glimmerT_57648-T1
Valid prediction for snap_scaffold_27-snap.1809-T1
Valid prediction for GlimmerHMM_glimmerT_57665-T1
Valid prediction for snap_scaffold_27-snap.1825-T1
Valid prediction for snap_scaffold_27-snap.1830-T1
Valid prediction for snap_scaffold_27-snap.1801-T1
Valid prediction for snap_scaffold_27-snap.1822-T1
Valid prediction for snap_scaffold_27-snap.1790-T1
Valid prediction for snap_scaffold_27-snap.1823-T1
Valid prediction for Augustus_model.g38209.t1
Valid prediction for snap_scaffold_27-snap.1791-T1
Valid prediction for GlimmerHMM_glimmerT_57655-T1
Valid prediction for snap_scaffold_27-snap.1787-T1
Valid prediction for snap_scaffold_27-snap.1794-T1
Valid prediction for snap_scaffold_27-snap.1797-T1
Valid prediction for Augustus_model.g38212.t1
Valid prediction for snap_scaffold_27-snap.1803-T1
Valid prediction for GlimmerHMM_glimmerT_57667-T1
Valid prediction for snap_scaffold_27-snap.1826-T1
Valid prediction for snap_scaffold_27-snap.1806-T1
Valid prediction for GlimmerHMM_glimmerT_57650-T1
Valid prediction for GlimmerHMM_glimmerT_57652-T1
Valid prediction for GlimmerHMM_glimmerT_57664-T1
Valid prediction for GlimmerHMM_glimmerT_57645-T1
Valid prediction for GlimmerHMM_glimmerT_57649-T1
Valid prediction for GlimmerHMM_glimmerT_57661-T1
Valid prediction for snap_scaffold_27-snap.1819-T1
Valid prediction for Augustus_model.g38211.t1
Valid prediction for GlimmerHMM_glimmerT_57660-T1
Valid prediction for snap_scaffold_27-snap.1811-T1
Valid prediction for GlimmerHMM_glimmerT_57657-T1
Valid prediction for snap_scaffold_27-snap.1828-T1
Valid prediction for Augustus_model.g38208.t1
Valid prediction for snap_scaffold_27-snap.1798-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15809, rend_intergenic: 10917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20615, rend_intergenic: 18711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27977, rend_intergenic: 22994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36237, rend_intergenic: 28931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53824, rend_intergenic: 43667  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55720, rend_intergenic: 54485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61552, rend_intergenic: 56577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75337, rend_intergenic: 61890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77996, rend_intergenic: 77408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95005, rend_intergenic: 79591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96399, rend_intergenic: 95355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97967, rend_intergenic: 96697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107390, rend_intergenic: 99278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122996, rend_intergenic: 113881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128444, rend_intergenic: 123000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131931, rend_intergenic: 129148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140956, rend_intergenic: 132258  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152272, rend_intergenic: 143171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169447, rend_intergenic: 165726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177989, rend_intergenic: 170015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179409, rend_intergenic: 178848  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183210, rend_intergenic: 180139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194896, rend_intergenic: 183759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202597, rend_intergenic: 196201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210804, rend_intergenic: 203364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 123281, rend_intergenic: 123278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 211739
-exon list size: 315


building trellis

0.3    
0.6    
0.9    
1.3    
1.6    
1.9    
2.2    
2.5    
2.8    
3.2    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.6    
13.9    
14.2    
14.5    
14.8    
15.1    
15.5    
15.8    
16.1    
16.4    
16.7    
17.0    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.8    
28.1    
28.4    
28.7    
29.0    
29.3    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.9    
32.2    
32.5    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.2    
44.5    
44.8    
45.1    
45.4    
45.7    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.3    
54.6    
54.9    
55.2    
55.5    
55.8    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.5    
67.8    
68.1    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.7    
77.0    
77.3    
77.6    
77.9    
78.2    
78.5    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.2    
97.5    
97.8    
98.1    
98.4    
98.7    
99.1    
99.4    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 15809, rend_intergenic: 10917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20615, rend_intergenic: 18711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27977, rend_intergenic: 22994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36237, rend_intergenic: 28931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53824, rend_intergenic: 43667  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55720, rend_intergenic: 54485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61552, rend_intergenic: 56577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75337, rend_intergenic: 61890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77996, rend_intergenic: 77408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95005, rend_intergenic: 79591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96399, rend_intergenic: 95355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97967, rend_intergenic: 96697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107390, rend_intergenic: 99278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122996, rend_intergenic: 113881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128444, rend_intergenic: 123000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131931, rend_intergenic: 129148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140956, rend_intergenic: 132258  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152272, rend_intergenic: 143171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169447, rend_intergenic: 165726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177989, rend_intergenic: 170015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179409, rend_intergenic: 178848  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183210, rend_intergenic: 180139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194896, rend_intergenic: 183759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202597, rend_intergenic: 196201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210804, rend_intergenic: 203364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 123281, rend_intergenic: 123278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support