-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_9992232-10280454

-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 Augustus_model.g12065.t1
Valid prediction for GlimmerHMM_glimmerT_17977-T1
Valid prediction for snap_scaffold_7-snap.1969-T1
Valid prediction for snap_scaffold_7-snap.1967-T1
Valid prediction for Augustus_model.g12072.t1
Valid prediction for snap_scaffold_7-snap.1933-T1
Valid prediction for GlimmerHMM_glimmerT_17976-T1
Valid prediction for GlimmerHMM_glimmerT_17968-T1
Valid prediction for Augustus_model.g12067.t1
Valid prediction for Augustus_model.g12066.t1
Valid prediction for Augustus_model.g12076.t1
Valid prediction for snap_scaffold_7-snap.1938-T1
Valid prediction for Augustus_model.g12073.t1
Valid prediction for Augustus_model.g12071.t1
Valid prediction for GlimmerHMM_glimmerT_17970-T1
Valid prediction for Augustus_model.g12068.t1
Valid prediction for GlimmerHMM_glimmerT_17964-T1
Valid prediction for snap_scaffold_7-snap.1950-T1
Valid prediction for Augustus_model.g12069.t1
Valid prediction for snap_scaffold_7-snap.1952-T1
Valid prediction for snap_scaffold_7-snap.1936-T1
Valid prediction for snap_scaffold_7-snap.1942-T1
Valid prediction for snap_scaffold_7-snap.1943-T1
Valid prediction for snap_scaffold_7-snap.1937-T1
Valid prediction for snap_scaffold_7-snap.1958-T1
Valid prediction for GlimmerHMM_glimmerT_17969-T1
Valid prediction for snap_scaffold_7-snap.1948-T1
Valid prediction for GlimmerHMM_glimmerT_17971-T1
Valid prediction for snap_scaffold_7-snap.1941-T1
Valid prediction for snap_scaffold_7-snap.1946-T1
Valid prediction for snap_scaffold_7-snap.1930-T1
Valid prediction for GlimmerHMM_glimmerT_17967-T1
Valid prediction for GlimmerHMM_glimmerT_17975-T1
Valid prediction for snap_scaffold_7-snap.1953-T1
Valid prediction for Augustus_model.g12082.t1
Valid prediction for snap_scaffold_7-snap.1955-T1
Valid prediction for snap_scaffold_7-snap.1949-T1
Valid prediction for snap_scaffold_7-snap.1957-T1
Valid prediction for snap_scaffold_7-snap.1935-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_17981-T1
Valid prediction for GlimmerHMM_glimmerT_17978-T1
Valid prediction for snap_scaffold_7-snap.1932-T1
Valid prediction for snap_scaffold_7-snap.1964-T1
Valid prediction for snap_scaffold_7-snap.1934-T1
Valid prediction for snap_scaffold_7-snap.1956-T1
Valid prediction for GlimmerHMM_glimmerT_17972-T1
Valid prediction for HiQ_model.g12081.t1
Valid prediction for snap_scaffold_7-snap.1951-T1
Valid prediction for snap_scaffold_7-snap.1939-T1
Couldn't classify 283644, 283699
Sorry, prediction pasa_asmbl_51105.p1 fails validation.
(ATG)	 GA	281684-281725	GT	AGG
(GGC)	 AG	282742-282897	GT	TGG
(CTG)	 AG	283099-283280	GT	AAG
(TGA)	 AG	283396-283487	GT	AGG
(GTG)	 AG	283644-283699	GC	AGG
-recovered pasa_asmbl_51105.p1, initial, 281684, 281725
-recovered pasa_asmbl_51105.p1, internal, 282742, 282897
-recovered pasa_asmbl_51105.p1, internal, 283099, 283280
-recovered pasa_asmbl_51105.p1, internal, 283396, 283487
-recovered pasa_asmbl_51105.p1, internal, 283644, 283699
Couldn't classify 12646, 12843
Sorry, prediction pasa_asmbl_51115.p1 fails validation.
(CTC)	 TT	12646-12843	GT	AGG
(TCT)	 AG	13160-13336	CC	GAC
-recovered pasa_asmbl_51115.p1, terminal, 13160, 13336
Valid prediction for Augustus_model.g12075.t1
Valid prediction for snap_scaffold_7-snap.1944-T1
Valid prediction for snap_scaffold_7-snap.1940-T1
Valid prediction for Augustus_model.g12070.t1
Valid prediction for GlimmerHMM_glimmerT_17983-T1
Valid prediction for snap_scaffold_7-snap.1959-T1
Valid prediction for CodingQuarry_transcript_57610-T1
Valid prediction for snap_scaffold_7-snap.1962-T1
Valid prediction for snap_scaffold_7-snap.1931-T1
Valid prediction for Augustus_model.g12080.t1
Valid prediction for Augustus_model.g12077.t1
Valid prediction for snap_scaffold_7-snap.1947-T1
Valid prediction for snap_scaffold_7-snap.1963-T1
Valid prediction for Augustus_model.g12064.t1
Valid prediction for CodingQuarry_transcript_57612-T1
Valid prediction for snap_scaffold_7-snap.1954-T1
Valid prediction for Augustus_model.g12063.t1
Valid prediction for GlimmerHMM_glimmerT_17963-T1
Valid prediction for GlimmerHMM_glimmerT_17979-T1
Valid prediction for snap_scaffold_7-snap.1929-T1
Valid prediction for snap_scaffold_7-snap.1966-T1
Valid prediction for GlimmerHMM_glimmerT_17980-T1
Valid prediction for pasa_asmbl_51112.p1
Valid prediction for snap_scaffold_7-snap.1960-T1
Valid prediction for snap_scaffold_7-snap.1961-T1
Valid prediction for GlimmerHMM_glimmerT_17966-T1
Couldn't classify 73242, 73279
Couldn't classify 73749, 73910
Sorry, prediction pasa_asmbl_51108.p1 fails validation.
(TGC)	 CT	73242-73279	GT	AGG
(AGG)	 AG	73458-73599	GT	TGG
(GTG)	 AG	73749-73910	AG	GCA
-recovered pasa_asmbl_51108.p1, internal, 73458, 73599
Valid prediction for snap_scaffold_7-snap.1965-T1
Valid prediction for GlimmerHMM_glimmerT_17974-T1
Valid prediction for snap_scaffold_7-snap.1945-T1
Valid prediction for GlimmerHMM_glimmerT_17982-T1
Valid prediction for Augustus_model.g12078.t1
Valid prediction for GlimmerHMM_glimmerT_17965-T1
Valid prediction for Augustus_model.g12074.t1
Couldn't classify 15562, 15690
Sorry, prediction CodingQuarry_transcript_57611-T1 fails validation.
(ATG)	 AG	9749-10365	GT	AGG
(GTC)	 AG	10552-10669	GT	AGG
(CTC)	 AG	11499-11652	GT	GTG
(ATT)	 AG	12677-12843	GT	AGG
(AGG)	 GG	15562-15690	CA	GAC
-recovered CodingQuarry_transcript_57611-T1, initial, 9749, 10365
-recovered CodingQuarry_transcript_57611-T1, internal, 9749, 10365
-recovered CodingQuarry_transcript_57611-T1, internal, 10552, 10669
-recovered CodingQuarry_transcript_57611-T1, internal, 11499, 11652
-recovered CodingQuarry_transcript_57611-T1, internal, 12677, 12843
Valid prediction for snap_scaffold_7-snap.1968-T1
Valid prediction for GlimmerHMM_glimmerT_17962-T1
Valid prediction for Augustus_model.g12079.t1
Valid prediction for GlimmerHMM_glimmerT_17973-T1
Valid prediction for GlimmerHMM_glimmerT_17984-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 41373, rend_intergenic: 37336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70534, rend_intergenic: 67538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96835, rend_intergenic: 94921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103078, rend_intergenic: 99059  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134625, rend_intergenic: 128808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152074, rend_intergenic: 148696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215768, rend_intergenic: 203813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 278475, rend_intergenic: 278270  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 288223
-exon list size: 334


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
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    
17.6    
17.9    
18.2    
18.5    
18.8    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.4    
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    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
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    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
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    
67.6    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.1    
82.4    
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    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 41373, rend_intergenic: 37336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70534, rend_intergenic: 67538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96835, rend_intergenic: 94921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103078, rend_intergenic: 99059  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134625, rend_intergenic: 128808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152074, rend_intergenic: 148696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215768, rend_intergenic: 203813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 278475, rend_intergenic: 278270  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support