-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_24/scaffold_24_7869514-8027053

-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.94473_t
Valid prediction for GeneMark_model.94493_t
Valid prediction for GeneMark_model.94487_t
Valid prediction for GeneMark_model.94471_t
Valid prediction for snap_scaffold_24-snap.1633-T1
Valid prediction for snap_scaffold_24-snap.1641-T1
Valid prediction for Augustus_model.g36286.t1
Valid prediction for GlimmerHMM_glimmerT_54219-T1
Valid prediction for GlimmerHMM_glimmerT_54216-T1
Valid prediction for GeneMark_model.94499_t
Valid prediction for GlimmerHMM_glimmerT_54215-T1
Valid prediction for HiQ_model.g36292.t1
Valid prediction for snap_scaffold_24-snap.1655-T1
Valid prediction for GeneMark_model.94490_t
Valid prediction for Augustus_model.g36288.t1
Valid prediction for snap_scaffold_24-snap.1642-T1
Valid prediction for snap_scaffold_24-snap.1638-T1
Valid prediction for GlimmerHMM_glimmerT_54207-T1
Valid prediction for Augustus_model.g36284.t1
Valid prediction for snap_scaffold_24-snap.1649-T1
Valid prediction for GeneMark_model.94479_t
Valid prediction for Augustus_model.g36294.t1
Valid prediction for GeneMark_model.94475_t
Valid prediction for Augustus_model.g36295.t1
Valid prediction for Augustus_model.g36285.t1
Valid prediction for GlimmerHMM_glimmerT_54211-T1
Valid prediction for snap_scaffold_24-snap.1627-T1
Valid prediction for snap_scaffold_24-snap.1640-T1
Valid prediction for GlimmerHMM_glimmerT_54201-T1
Valid prediction for GeneMark_model.94491_t
Valid prediction for GlimmerHMM_glimmerT_54205-T1
Valid prediction for GeneMark_model.94485_t
Valid prediction for GeneMark_model.94467_t
Valid prediction for snap_scaffold_24-snap.1645-T1
Couldn't classify 37470, 37659
Couldn't classify 39493, 39609
Sorry, prediction pasa_asmbl_32406.p1 fails validation.
(AAC)	 TC	37470-37659	GT	AGG
(TGA)	 AG	37834-37995	GT	AGG
(TGA)	 AG	38117-38242	GT	AGG
(CAG)	 AG	38507-38728	GT	AGG
(CTG)	 AG	38914-39077	GT	ACG
(GAG)	 AG	39493-39609	AA	GCA
-recovered pasa_asmbl_32406.p1, internal, 37834, 37995
-recovered pasa_asmbl_32406.p1, internal, 38117, 38242
-recovered pasa_asmbl_32406.p1, internal, 38507, 38728
-recovered pasa_asmbl_32406.p1, internal, 38914, 39077
Valid prediction for GeneMark_model.94482_t
Valid prediction for snap_scaffold_24-snap.1647-T1
Valid prediction for GlimmerHMM_glimmerT_54204-T1
Valid prediction for snap_scaffold_24-snap.1634-T1
Valid prediction for snap_scaffold_24-snap.1651-T1
Valid prediction for snap_scaffold_24-snap.1632-T1
Valid prediction for GeneMark_model.94477_t
Valid prediction for GeneMark_model.94468_t
Valid prediction for GeneMark_model.94465_t
Valid prediction for Augustus_model.g36293.t1
Valid prediction for snap_scaffold_24-snap.1644-T1
Valid prediction for GeneMark_model.94496_t
Valid prediction for GlimmerHMM_glimmerT_54203-T1
Valid prediction for GeneMark_model.94484_t
Valid prediction for snap_scaffold_24-snap.1653-T1
Valid prediction for Augustus_model.g36290.t1
Valid prediction for snap_scaffold_24-snap.1652-T1
Valid prediction for GlimmerHMM_glimmerT_54209-T1
Valid prediction for GlimmerHMM_glimmerT_54217-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 GeneMark_model.94476_t
Valid prediction for GlimmerHMM_glimmerT_54212-T1
Valid prediction for GlimmerHMM_glimmerT_54199-T1
Valid prediction for GeneMark_model.94478_t
Valid prediction for snap_scaffold_24-snap.1628-T1
Valid prediction for snap_scaffold_24-snap.1639-T1
Valid prediction for snap_scaffold_24-snap.1650-T1
Valid prediction for GeneMark_model.94492_t
Valid prediction for Augustus_model.g36289.t1
Valid prediction for GeneMark_model.94486_t
Valid prediction for snap_scaffold_24-snap.1656-T1
Valid prediction for snap_scaffold_24-snap.1629-T1
Valid prediction for GeneMark_model.94481_t
Valid prediction for GlimmerHMM_glimmerT_54202-T1
Valid prediction for GlimmerHMM_glimmerT_54218-T1
Valid prediction for GeneMark_model.94483_t
Valid prediction for GeneMark_model.94464_t
Valid prediction for GeneMark_model.94501_t
Valid prediction for GeneMark_model.94489_t
Valid prediction for snap_scaffold_24-snap.1630-T1
Valid prediction for GeneMark_model.94488_t
Valid prediction for pasa_asmbl_33068.p1
Valid prediction for GeneMark_model.94497_t
Valid prediction for GeneMark_model.94470_t
Valid prediction for GeneMark_model.94502_t
Valid prediction for snap_scaffold_24-snap.1643-T1
Valid prediction for GeneMark_model.94474_t
Valid prediction for GeneMark_model.94498_t
Valid prediction for snap_scaffold_24-snap.1648-T1
Valid prediction for GlimmerHMM_glimmerT_54208-T1
Valid prediction for snap_scaffold_24-snap.1654-T1
Valid prediction for GeneMark_model.94472_t
Valid prediction for snap_scaffold_24-snap.1646-T1
Valid prediction for GlimmerHMM_glimmerT_54213-T1
Valid prediction for GeneMark_model.94500_t
Valid prediction for GlimmerHMM_glimmerT_54200-T1
Valid prediction for GlimmerHMM_glimmerT_54210-T1
Valid prediction for snap_scaffold_24-snap.1635-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_24-snap.1637-T1
Valid prediction for Augustus_model.g36283.t1
Valid prediction for snap_scaffold_24-snap.1636-T1
Valid prediction for GlimmerHMM_glimmerT_54214-T1
Valid prediction for GeneMark_model.94469_t
Valid prediction for snap_scaffold_24-snap.1626-T1
Valid prediction for GeneMark_model.94494_t
Valid prediction for Augustus_model.g36287.t1
Valid prediction for GeneMark_model.94466_t
Valid prediction for GeneMark_model.94495_t
Valid prediction for HiQ_model.g36291.t1
Valid prediction for GlimmerHMM_glimmerT_54206-T1
Valid prediction for snap_scaffold_24-snap.1631-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16038, rend_intergenic: 5049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39618, rend_intergenic: 36884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79203, rend_intergenic: 76886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89247, rend_intergenic: 87407  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117429, rend_intergenic: 113441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155871, rend_intergenic: 151544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 157540
-exon list size: 509


building trellis

0.2    
0.4    
0.6    
0.8    
1.0    
1.2    
1.4    
1.6    
1.8    
2.0    
2.2    
2.3    
2.5    
2.7    
2.9    
3.1    
3.3    
3.5    
3.7    
3.9    
4.1    
4.3    
4.5    
4.7    
4.9    
5.1    
5.3    
5.5    
5.7    
5.9    
6.1    
6.3    
6.5    
6.7    
6.8    
7.0    
7.2    
7.4    
7.6    
7.8    
8.0    
8.2    
8.4    
8.6    
8.8    
9.0    
9.2    
9.4    
9.6    
9.8    
10.0    
10.2    
10.4    
10.6    
10.8    
11.0    
11.2    
11.4    
11.5    
11.7    
11.9    
12.1    
12.3    
12.5    
12.7    
12.9    
13.1    
13.3    
13.5    
13.7    
13.9    
14.1    
14.3    
14.5    
14.7    
14.9    
15.1    
15.3    
15.5    
15.7    
15.9    
16.0    
16.2    
16.4    
16.6    
16.8    
17.0    
17.2    
17.4    
17.6    
17.8    
18.0    
18.2    
18.4    
18.6    
18.8    
19.0    
19.2    
19.4    
19.6    
19.8    
20.0    
20.2    
20.4    
20.5    
20.7    
20.9    
21.1    
21.3    
21.5    
21.7    
21.9    
22.1    
22.3    
22.5    
22.7    
22.9    
23.1    
23.3    
23.5    
23.7    
23.9    
24.1    
24.3    
24.5    
24.7    
24.9    
25.0    
25.2    
25.4    
25.6    
25.8    
26.0    
26.2    
26.4    
26.6    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
28.0    
28.2    
28.4    
28.6    
28.8    
29.0    
29.2    
29.4    
29.5    
29.7    
29.9    
30.1    
30.3    
30.5    
30.7    
30.9    
31.1    
31.3    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.7    
33.9    
34.1    
34.2    
34.4    
34.6    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
37.0    
37.2    
37.4    
37.6    
37.8    
38.0    
38.2    
38.4    
38.6    
38.7    
38.9    
39.1    
39.3    
39.5    
39.7    
39.9    
40.1    
40.3    
40.5    
40.7    
40.9    
41.1    
41.3    
41.5    
41.7    
41.9    
42.1    
42.3    
42.5    
42.7    
42.9    
43.1    
43.2    
43.4    
43.6    
43.8    
44.0    
44.2    
44.4    
44.6    
44.8    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.2    
46.4    
46.6    
46.8    
47.0    
47.2    
47.4    
47.6    
47.7    
47.9    
48.1    
48.3    
48.5    
48.7    
48.9    
49.1    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
50.9    
51.1    
51.3    
51.5    
51.7    
51.9    
52.1    
52.3    
52.4    
52.6    
52.8    
53.0    
53.2    
53.4    
53.6    
53.8    
54.0    
54.2    
54.4    
54.6    
54.8    
55.0    
55.2    
55.4    
55.6    
55.8    
56.0    
56.2    
56.4    
56.6    
56.8    
56.9    
57.1    
57.3    
57.5    
57.7    
57.9    
58.1    
58.3    
58.5    
58.7    
58.9    
59.1    
59.3    
59.5    
59.7    
59.9    
60.1    
60.3    
60.5    
60.7    
60.9    
61.1    
61.3    
61.4    
61.6    
61.8    
62.0    
62.2    
62.4    
62.6    
62.8    
63.0    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.4    
64.6    
64.8    
65.0    
65.2    
65.4    
65.6    
65.8    
65.9    
66.1    
66.3    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.7    
68.9    
69.1    
69.3    
69.5    
69.7    
69.9    
70.1    
70.3    
70.5    
70.6    
70.8    
71.0    
71.2    
71.4    
71.6    
71.8    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.4    
73.6    
73.8    
74.0    
74.2    
74.4    
74.6    
74.8    
75.0    
75.1    
75.3    
75.5    
75.7    
75.9    
76.1    
76.3    
76.5    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.1    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.6    
79.8    
80.0    
80.2    
80.4    
80.6    
80.8    
81.0    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.8    
84.0    
84.1    
84.3    
84.5    
84.7    
84.9    
85.1    
85.3    
85.5    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
86.9    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.3    
88.5    
88.6    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
92.2    
92.4    
92.6    
92.8    
93.0    
93.2    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.1    
97.3    
97.5    
97.7    
97.8    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 16038, rend_intergenic: 5049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39618, rend_intergenic: 36884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79203, rend_intergenic: 76886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89247, rend_intergenic: 87407  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117429, rend_intergenic: 113441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155871, rend_intergenic: 151544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 138193 - 157540
-exon list size: 54


building trellis

1.8    
3.6    
5.4    
7.1    
8.9    
10.7    
12.5    
14.3    
16.1    
17.9    
19.6    
21.4    
23.2    
25.0    
26.8    
28.6    
30.4    
32.1    
33.9    
35.7    
37.5    
39.3    
41.1    
42.9    
44.6    
46.4    
48.2    
50.0    
51.8    
53.6    
55.4    
57.1    
58.9    
60.7    
62.5    
64.3    
66.1    
67.9    
69.6    
71.4    
73.2    
75.0    
76.8    
78.6    
80.4    
82.1    
83.9    
85.7    
87.5    
89.3    
91.1    
92.9    
94.6    
96.4    
98.2    
-found 2 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 138193 - 150258
-exon list size: 23


building trellis

4.0    
8.0    
12.0    
16.0    
20.0    
24.0    
28.0    
32.0    
36.0    
40.0    
44.0    
48.0    
52.0    
56.0    
60.0    
64.0    
68.0    
72.0    
76.0    
80.0    
84.0    
88.0    
92.0    
96.0    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support