-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_7836218-8000229

-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_52912-T1
Valid prediction for snap_scaffold_24-snap.1645-T1
Valid prediction for snap_scaffold_24-snap.1635-T1
Valid prediction for GlimmerHMM_glimmerT_52894-T1
Valid prediction for GlimmerHMM_glimmerT_52900-T1
Valid prediction for Augustus_model.g35235.t1
Valid prediction for Augustus_model.g35245.t1
Valid prediction for snap_scaffold_24-snap.1647-T1
Valid prediction for Augustus_model.g35241.t1
Couldn't classify 13665, 13731
Sorry, prediction CodingQuarry_transcript_37371-T1 fails validation.
(ATG)	 TG	13410-13517	GT	AGG
(ACC)	 AT	13665-13731	GT	AGG
(ATG)	 AG	13828-13901	GT	CCG
(GAC)	 AG	13983-14122	GT	CAG
(CGT)	 AG	14241-14377	GT	AGG
(GTC)	 AG	14640-14698	GT	AGG
(CAG)	 AG	15384-15444	GT	CGG
(AGG)	 AG	15799-15923	AC	AGA
-recovered CodingQuarry_transcript_37371-T1, initial, 13410, 13517
-recovered CodingQuarry_transcript_37371-T1, initial, 13828, 13901
-recovered CodingQuarry_transcript_37371-T1, terminal, 15799, 15923
-recovered CodingQuarry_transcript_37371-T1, internal, 13828, 13901
-recovered CodingQuarry_transcript_37371-T1, internal, 13983, 14122
-recovered CodingQuarry_transcript_37371-T1, internal, 14241, 14377
-recovered CodingQuarry_transcript_37371-T1, internal, 14640, 14698
-recovered CodingQuarry_transcript_37371-T1, internal, 15384, 15444
Valid prediction for GlimmerHMM_glimmerT_52896-T1
Valid prediction for GlimmerHMM_glimmerT_52910-T1
Valid prediction for snap_scaffold_24-snap.1626-T1
Valid prediction for GlimmerHMM_glimmerT_52898-T1
Valid prediction for Augustus_model.g35248.t1
Valid prediction for Augustus_model.g35237.t1
Valid prediction for snap_scaffold_24-snap.1643-T1
Valid prediction for Augustus_model.g35250.t1
Valid prediction for snap_scaffold_24-snap.1628-T1
Couldn't classify 15255, 15444
Sorry, prediction pasa_asmbl_32400.p2 fails validation.
(GTC)	 AT	15255-15444	GT	CGG
(AGG)	 AG	15799-15923	AC	AGA
-recovered pasa_asmbl_32400.p2, terminal, 15799, 15923
Valid prediction for GlimmerHMM_glimmerT_52905-T1
Valid prediction for Augustus_model.g35249.t1
Valid prediction for snap_scaffold_24-snap.1651-T1
Valid prediction for Augustus_model.g35239.t1
Valid prediction for GlimmerHMM_glimmerT_52902-T1
Valid prediction for Augustus_model.g35240.t1
Valid prediction for GlimmerHMM_glimmerT_52904-T1
Valid prediction for GlimmerHMM_glimmerT_52917-T1
Valid prediction for snap_scaffold_24-snap.1633-T1
Valid prediction for GlimmerHMM_glimmerT_52909-T1
Valid prediction for snap_scaffold_24-snap.1640-T1
Valid prediction for GlimmerHMM_glimmerT_52920-T1
Couldn't classify 70766, 70955
Couldn't classify 72789, 72905
Sorry, prediction pasa_asmbl_32401.p1 fails validation.
(AAC)	 TC	70766-70955	GT	AGG
(TGA)	 AG	71130-71291	GT	AGG
(TGA)	 AG	71413-71538	GT	AGG
(CAG)	 AG	71803-72024	GT	AGG
(CTG)	 AG	72210-72373	GT	ACG
(GAG)	 AG	72789-72905	AA	GCA
-recovered pasa_asmbl_32401.p1, internal, 71130, 71291
-recovered pasa_asmbl_32401.p1, internal, 71413, 71538
-recovered pasa_asmbl_32401.p1, internal, 71803, 72024
-recovered pasa_asmbl_32401.p1, internal, 72210, 72373
Valid prediction for Augustus_model.g35243.t1
Valid prediction for snap_scaffold_24-snap.1625-T1
Valid prediction for snap_scaffold_24-snap.1641-T1
Valid prediction for GlimmerHMM_glimmerT_52906-T1
Valid prediction for GlimmerHMM_glimmerT_52915-T1
Valid prediction for snap_scaffold_24-snap.1620-T1
Valid prediction for snap_scaffold_24-snap.1644-T1
Valid prediction for HiQ_model.g35247.t1
Valid prediction for GlimmerHMM_glimmerT_52914-T1
Valid prediction for snap_scaffold_24-snap.1621-T1
Valid prediction for GlimmerHMM_glimmerT_52919-T1
Valid prediction for GlimmerHMM_glimmerT_52918-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 Augustus_model.g35242.t1
Valid prediction for snap_scaffold_24-snap.1642-T1
Valid prediction for GlimmerHMM_glimmerT_52895-T1
Valid prediction for pasa_asmbl_33079.p1
Valid prediction for snap_scaffold_24-snap.1652-T1
Valid prediction for snap_scaffold_24-snap.1646-T1
Valid prediction for GlimmerHMM_glimmerT_52897-T1
Valid prediction for GlimmerHMM_glimmerT_52908-T1
Valid prediction for Augustus_model.g35238.t1
Valid prediction for snap_scaffold_24-snap.1623-T1
Valid prediction for snap_scaffold_24-snap.1618-T1
Valid prediction for snap_scaffold_24-snap.1631-T1
Valid prediction for snap_scaffold_24-snap.1632-T1
Valid prediction for snap_scaffold_24-snap.1639-T1
Valid prediction for GlimmerHMM_glimmerT_52911-T1
Valid prediction for GlimmerHMM_glimmerT_52913-T1
Valid prediction for Augustus_model.g35236.t1
Valid prediction for snap_scaffold_24-snap.1650-T1
Valid prediction for GlimmerHMM_glimmerT_52901-T1
Valid prediction for GlimmerHMM_glimmerT_52899-T1
Valid prediction for snap_scaffold_24-snap.1627-T1
Valid prediction for CodingQuarry_transcript_37372-T1
Valid prediction for pasa_asmbl_33072.p1
Valid prediction for Augustus_model.g35234.t1
Valid prediction for snap_scaffold_24-snap.1636-T1
Sorry, intron length (6) is less than minimum required (10)
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_24-snap.1648-T1
Valid prediction for snap_scaffold_24-snap.1638-T1
Valid prediction for snap_scaffold_24-snap.1630-T1
Valid prediction for snap_scaffold_24-snap.1624-T1
Valid prediction for HiQ_model.g35246.t1
Valid prediction for snap_scaffold_24-snap.1649-T1
Valid prediction for snap_scaffold_24-snap.1629-T1
Valid prediction for GlimmerHMM_glimmerT_52907-T1
Valid prediction for snap_scaffold_24-snap.1617-T1
Valid prediction for snap_scaffold_24-snap.1634-T1
Valid prediction for GlimmerHMM_glimmerT_52916-T1
Valid prediction for Augustus_model.g35244.t1
Valid prediction for GlimmerHMM_glimmerT_52903-T1
Valid prediction for GlimmerHMM_glimmerT_52893-T1
Valid prediction for snap_scaffold_24-snap.1619-T1
Valid prediction for snap_scaffold_24-snap.1622-T1
Valid prediction for snap_scaffold_24-snap.1637-T1
Valid prediction for CodingQuarry_transcript_37373-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 49334, rend_intergenic: 38345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69551, rend_intergenic: 65981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72914, rend_intergenic: 69957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112499, rend_intergenic: 110182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122543, rend_intergenic: 120703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150725, rend_intergenic: 146737  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164012
-exon list size: 302


building trellis

0.3    
0.7    
1.0    
1.3    
1.6    
2.0    
2.3    
2.6    
3.0    
3.3    
3.6    
3.9    
4.3    
4.6    
4.9    
5.3    
5.6    
5.9    
6.2    
6.6    
6.9    
7.2    
7.6    
7.9    
8.2    
8.6    
8.9    
9.2    
9.5    
9.9    
10.2    
10.5    
10.9    
11.2    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.8    
14.1    
14.5    
14.8    
15.1    
15.5    
15.8    
16.1    
16.4    
16.8    
17.1    
17.4    
17.8    
18.1    
18.4    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.4    
23.7    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.3    
26.6    
27.0    
27.3    
27.6    
28.0    
28.3    
28.6    
28.9    
29.3    
29.6    
29.9    
30.3    
30.6    
30.9    
31.2    
31.6    
31.9    
32.2    
32.6    
32.9    
33.2    
33.6    
33.9    
34.2    
34.5    
34.9    
35.2    
35.5    
35.9    
36.2    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.4    
41.8    
42.1    
42.4    
42.8    
43.1    
43.4    
43.8    
44.1    
44.4    
44.7    
45.1    
45.4    
45.7    
46.1    
46.4    
46.7    
47.0    
47.4    
47.7    
48.0    
48.4    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.6    
52.0    
52.3    
52.6    
53.0    
53.3    
53.6    
53.9    
54.3    
54.6    
54.9    
55.3    
55.6    
55.9    
56.2    
56.6    
56.9    
57.2    
57.6    
57.9    
58.2    
58.6    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.8    
64.1    
64.5    
64.8    
65.1    
65.5    
65.8    
66.1    
66.4    
66.8    
67.1    
67.4    
67.8    
68.1    
68.4    
68.8    
69.1    
69.4    
69.7    
70.1    
70.4    
70.7    
71.1    
71.4    
71.7    
72.0    
72.4    
72.7    
73.0    
73.4    
73.7    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.3    
76.6    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.6    
81.9    
82.2    
82.6    
82.9    
83.2    
83.6    
83.9    
84.2    
84.5    
84.9    
85.2    
85.5    
85.9    
86.2    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.8    
89.1    
89.5    
89.8    
90.1    
90.5    
90.8    
91.1    
91.4    
91.8    
92.1    
92.4    
92.8    
93.1    
93.4    
93.8    
94.1    
94.4    
94.7    
95.1    
95.4    
95.7    
96.1    
96.4    
96.7    
97.0    
97.4    
97.7    
98.0    
98.4    
98.7    
99.0    
99.3    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 49334, rend_intergenic: 38345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69551, rend_intergenic: 65981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72914, rend_intergenic: 69957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112499, rend_intergenic: 110182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122543, rend_intergenic: 120703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150725, rend_intergenic: 146737  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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