-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_1676288-1851451

-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: +)Couldn't classify 24083, 24301
Sorry, prediction pasa_asmbl_50503.p1 fails validation.
(CAC)	 CC	24083-24301	GT	AGG
(GAC)	 AG	24426-24515	GT	AAG
(GAG)	 AG	25251-25446	GT	CGG
(GTC)	 AG	25633-27311	TT	GAT
-recovered pasa_asmbl_50503.p1, terminal, 25633, 27311
-recovered pasa_asmbl_50503.p1, internal, 24426, 24515
-recovered pasa_asmbl_50503.p1, internal, 25251, 25446
Valid prediction for snap_scaffold_7-snap.400-T1
Valid prediction for snap_scaffold_7-snap.406-T1
Valid prediction for GeneMark_model.29178_t
Valid prediction for snap_scaffold_7-snap.419-T1
Valid prediction for Augustus_model.g11610.t1
Couldn't classify 17274, 17332
Sorry, prediction pasa_asmbl_50499.p1 fails validation.
(ATG)	 TC	16090-16327	GT	AGG
(GTG)	 AG	16653-16772	GT	AAG
(ATC)	 AG	17274-17332	GC	TGG
-recovered pasa_asmbl_50499.p1, initial, 16090, 16327
-recovered pasa_asmbl_50499.p1, internal, 16653, 16772
-recovered pasa_asmbl_50499.p1, internal, 17274, 17332
Valid prediction for snap_scaffold_7-snap.416-T1
Valid prediction for GeneMark_model.29158_t
Valid prediction for GeneMark_model.29176_t
Valid prediction for snap_scaffold_7-snap.402-T1
Valid prediction for GlimmerHMM_glimmerT_17324-T1
Valid prediction for GlimmerHMM_glimmerT_17335-T1
Valid prediction for Augustus_model.g11602.t1
Valid prediction for GeneMark_model.29184_t
Valid prediction for snap_scaffold_7-snap.401-T1
Valid prediction for GeneMark_model.29188_t
Couldn't classify 18023, 18771
Couldn't classify 22519, 22626
Sorry, prediction pasa_asmbl_50501.p1 fails validation.
(CGC)	 GA	18023-18771	GT	ACG
(GTT)	 AG	19069-19351	GT	AGG
(GAC)	 AG	19994-20045	GT	AGG
(GGA)	 AG	20286-20394	GT	CGG
(GCT)	 AG	21592-21748	GT	ATG
(GTA)	 AG	22018-22134	GT	ACG
(ACT)	 AG	22243-22377	GT	AGG
(CCG)	 AG	22519-22626	CT	ACC
-recovered pasa_asmbl_50501.p1, internal, 19069, 19351
-recovered pasa_asmbl_50501.p1, internal, 19994, 20045
-recovered pasa_asmbl_50501.p1, internal, 20286, 20394
-recovered pasa_asmbl_50501.p1, internal, 21592, 21748
-recovered pasa_asmbl_50501.p1, internal, 22018, 22134
-recovered pasa_asmbl_50501.p1, internal, 22243, 22377
Valid prediction for Augustus_model.g11603.t1
Valid prediction for GlimmerHMM_glimmerT_17325-T1
Valid prediction for GlimmerHMM_glimmerT_17326-T1
Valid prediction for GeneMark_model.29172_t
Valid prediction for snap_scaffold_7-snap.423-T1
Valid prediction for GlimmerHMM_glimmerT_17333-T1
Valid prediction for snap_scaffold_7-snap.428-T1
Valid prediction for GlimmerHMM_glimmerT_17323-T1
Valid prediction for snap_scaffold_7-snap.407-T1
Valid prediction for GeneMark_model.29181_t
Valid prediction for GeneMark_model.29166_t
Valid prediction for GeneMark_model.29159_t
Valid prediction for GlimmerHMM_glimmerT_17330-T1
Valid prediction for Augustus_model.g11604.t1
Valid prediction for snap_scaffold_7-snap.429-T1
Valid prediction for GeneMark_model.29156_t
Valid prediction for GlimmerHMM_glimmerT_17318-T1
Valid prediction for snap_scaffold_7-snap.403-T1
Valid prediction for GlimmerHMM_glimmerT_17327-T1
Valid prediction for CodingQuarry_transcript_57287-T1
Valid prediction for snap_scaffold_7-snap.397-T1
Valid prediction for snap_scaffold_7-snap.413-T1
Valid prediction for GeneMark_model.29160_t
Valid prediction for GlimmerHMM_glimmerT_17316-T1
Valid prediction for GeneMark_model.29187_t
Valid prediction for GlimmerHMM_glimmerT_17314-T1
Valid prediction for GeneMark_model.29171_t
Valid prediction for GlimmerHMM_glimmerT_17338-T1
Valid prediction for snap_scaffold_7-snap.430-T1
Valid prediction for GeneMark_model.29182_t
Valid prediction for GeneMark_model.29162_t
Valid prediction for GeneMark_model.29168_t
Valid prediction for snap_scaffold_7-snap.398-T1
Couldn't classify 2362, 2397
Couldn't classify 7168, 7194
Sorry, prediction pasa_asmbl_50497.p2 fails validation.
(TTG)	 GT	2362-2397	GT	AAG
(AGC)	 AG	3433-3625	GT	AGG
(GTC)	 AG	4499-4641	GT	AGG
(ACC)	 AG	7168-7194	GG	GAG
-recovered pasa_asmbl_50497.p2, internal, 3433, 3625
-recovered pasa_asmbl_50497.p2, internal, 4499, 4641

-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.29174_t
Valid prediction for snap_scaffold_7-snap.412-T1
Valid prediction for GeneMark_model.29157_t
Valid prediction for snap_scaffold_7-snap.399-T1
Valid prediction for snap_scaffold_7-snap.431-T1
Valid prediction for Augustus_model.g11616.t1
Valid prediction for GeneMark_model.29189_t
Valid prediction for snap_scaffold_7-snap.425-T1
Valid prediction for GeneMark_model.29183_t
Valid prediction for Augustus_model.g11617.t1
Valid prediction for GlimmerHMM_glimmerT_17319-T1
Valid prediction for snap_scaffold_7-snap.433-T1
Valid prediction for Augustus_model.g11612.t1
Valid prediction for snap_scaffold_7-snap.404-T1
Valid prediction for GeneMark_model.29185_t
Valid prediction for GlimmerHMM_glimmerT_17322-T1
Valid prediction for Augustus_model.g11611.t1
Valid prediction for GeneMark_model.29186_t
Valid prediction for GlimmerHMM_glimmerT_17336-T1
Valid prediction for GeneMark_model.29164_t
Valid prediction for GeneMark_model.29179_t
Valid prediction for snap_scaffold_7-snap.435-T1
Valid prediction for GlimmerHMM_glimmerT_17315-T1
Valid prediction for snap_scaffold_7-snap.415-T1
Valid prediction for snap_scaffold_7-snap.410-T1
Valid prediction for GlimmerHMM_glimmerT_17332-T1
Valid prediction for snap_scaffold_7-snap.424-T1
Valid prediction for snap_scaffold_7-snap.422-T1
Valid prediction for snap_scaffold_7-snap.427-T1
Valid prediction for Augustus_model.g11613.t1
Valid prediction for GlimmerHMM_glimmerT_17331-T1
Valid prediction for GlimmerHMM_glimmerT_17320-T1
Valid prediction for Augustus_model.g11605.t1
Valid prediction for GeneMark_model.29163_t
Valid prediction for GeneMark_model.29173_t
Valid prediction for snap_scaffold_7-snap.405-T1
Valid prediction for Augustus_model.g11607.t1
Valid prediction for snap_scaffold_7-snap.409-T1
Valid prediction for snap_scaffold_7-snap.432-T1
Valid prediction for snap_scaffold_7-snap.436-T1
Valid prediction for GlimmerHMM_glimmerT_17328-T1
Valid prediction for Augustus_model.g11615.t1
Valid prediction for Augustus_model.g11606.t1
Valid prediction for GlimmerHMM_glimmerT_17317-T1
Valid prediction for snap_scaffold_7-snap.414-T1
Valid prediction for GlimmerHMM_glimmerT_17340-T1
Valid prediction for snap_scaffold_7-snap.418-T1
Valid prediction for GlimmerHMM_glimmerT_17321-T1
Valid prediction for GlimmerHMM_glimmerT_17334-T1
Valid prediction for snap_scaffold_7-snap.417-T1
Valid prediction for Augustus_model.g11608.t1
Valid prediction for GlimmerHMM_glimmerT_17329-T1
Valid prediction for Augustus_model.g11609.t1
Valid prediction for snap_scaffold_7-snap.411-T1
Valid prediction for snap_scaffold_7-snap.420-T1
Valid prediction for snap_scaffold_7-snap.408-T1
Valid prediction for GeneMark_model.29161_t
Valid prediction for GeneMark_model.29167_t
Valid prediction for GeneMark_model.29165_t
Valid prediction for snap_scaffold_7-snap.421-T1
Valid prediction for GeneMark_model.29169_t
Valid prediction for GlimmerHMM_glimmerT_17339-T1
Valid prediction for GeneMark_model.29170_t
Valid prediction for snap_scaffold_7-snap.434-T1
Valid prediction for Augustus_model.g11614.t1
Valid prediction for GlimmerHMM_glimmerT_17341-T1
Valid prediction for GeneMark_model.29177_t
Valid prediction for GeneMark_model.29175_t
Valid prediction for Augustus_model.g11618.t1
Valid prediction for GlimmerHMM_glimmerT_17337-T1
Valid prediction for snap_scaffold_7-snap.426-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 39908, rend_intergenic: 34192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101562, rend_intergenic: 98800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133822, rend_intergenic: 125604  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 175164
-exon list size: 546


building trellis

0.2    
0.4    
0.5    
0.7    
0.9    
1.1    
1.3    
1.5    
1.6    
1.8    
2.0    
2.2    
2.4    
2.6    
2.7    
2.9    
3.1    
3.3    
3.5    
3.6    
3.8    
4.0    
4.2    
4.4    
4.6    
4.7    
4.9    
5.1    
5.3    
5.5    
5.7    
5.8    
6.0    
6.2    
6.4    
6.6    
6.8    
6.9    
7.1    
7.3    
7.5    
7.7    
7.8    
8.0    
8.2    
8.4    
8.6    
8.8    
8.9    
9.1    
9.3    
9.5    
9.7    
9.9    
10.0    
10.2    
10.4    
10.6    
10.8    
10.9    
11.1    
11.3    
11.5    
11.7    
11.9    
12.0    
12.2    
12.4    
12.6    
12.8    
13.0    
13.1    
13.3    
13.5    
13.7    
13.9    
14.1    
14.2    
14.4    
14.6    
14.8    
15.0    
15.1    
15.3    
15.5    
15.7    
15.9    
16.1    
16.2    
16.4    
16.6    
16.8    
17.0    
17.2    
17.3    
17.5    
17.7    
17.9    
18.1    
18.2    
18.4    
18.6    
18.8    
19.0    
19.2    
19.3    
19.5    
19.7    
19.9    
20.1    
20.3    
20.4    
20.6    
20.8    
21.0    
21.2    
21.4    
21.5    
21.7    
21.9    
22.1    
22.3    
22.4    
22.6    
22.8    
23.0    
23.2    
23.4    
23.5    
23.7    
23.9    
24.1    
24.3    
24.5    
24.6    
24.8    
25.0    
25.2    
25.4    
25.5    
25.7    
25.9    
26.1    
26.3    
26.5    
26.6    
26.8    
27.0    
27.2    
27.4    
27.6    
27.7    
27.9    
28.1    
28.3    
28.5    
28.6    
28.8    
29.0    
29.2    
29.4    
29.6    
29.7    
29.9    
30.1    
30.3    
30.5    
30.7    
30.8    
31.0    
31.2    
31.4    
31.6    
31.8    
31.9    
32.1    
32.3    
32.5    
32.7    
32.8    
33.0    
33.2    
33.4    
33.6    
33.8    
33.9    
34.1    
34.3    
34.5    
34.7    
34.9    
35.0    
35.2    
35.4    
35.6    
35.8    
35.9    
36.1    
36.3    
36.5    
36.7    
36.9    
37.0    
37.2    
37.4    
37.6    
37.8    
38.0    
38.1    
38.3    
38.5    
38.7    
38.9    
39.1    
39.2    
39.4    
39.6    
39.8    
40.0    
40.1    
40.3    
40.5    
40.7    
40.9    
41.1    
41.2    
41.4    
41.6    
41.8    
42.0    
42.2    
42.3    
42.5    
42.7    
42.9    
43.1    
43.2    
43.4    
43.6    
43.8    
44.0    
44.2    
44.3    
44.5    
44.7    
44.9    
45.1    
45.3    
45.4    
45.6    
45.8    
46.0    
46.2    
46.4    
46.5    
46.7    
46.9    
47.1    
47.3    
47.4    
47.6    
47.8    
48.0    
48.2    
48.4    
48.5    
48.7    
48.9    
49.1    
49.3    
49.5    
49.6    
49.8    
50.0    
50.2    
50.4    
50.5    
50.7    
50.9    
51.1    
51.3    
51.5    
51.6    
51.8    
52.0    
52.2    
52.4    
52.6    
52.7    
52.9    
53.1    
53.3    
53.5    
53.6    
53.8    
54.0    
54.2    
54.4    
54.6    
54.7    
54.9    
55.1    
55.3    
55.5    
55.7    
55.8    
56.0    
56.2    
56.4    
56.6    
56.8    
56.9    
57.1    
57.3    
57.5    
57.7    
57.8    
58.0    
58.2    
58.4    
58.6    
58.8    
58.9    
59.1    
59.3    
59.5    
59.7    
59.9    
60.0    
60.2    
60.4    
60.6    
60.8    
60.9    
61.1    
61.3    
61.5    
61.7    
61.9    
62.0    
62.2    
62.4    
62.6    
62.8    
63.0    
63.1    
63.3    
63.5    
63.7    
63.9    
64.1    
64.2    
64.4    
64.6    
64.8    
65.0    
65.1    
65.3    
65.5    
65.7    
65.9    
66.1    
66.2    
66.4    
66.6    
66.8    
67.0    
67.2    
67.3    
67.5    
67.7    
67.9    
68.1    
68.2    
68.4    
68.6    
68.8    
69.0    
69.2    
69.3    
69.5    
69.7    
69.9    
70.1    
70.3    
70.4    
70.6    
70.8    
71.0    
71.2    
71.4    
71.5    
71.7    
71.9    
72.1    
72.3    
72.4    
72.6    
72.8    
73.0    
73.2    
73.4    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.6    
74.8    
75.0    
75.2    
75.4    
75.5    
75.7    
75.9    
76.1    
76.3    
76.5    
76.6    
76.8    
77.0    
77.2    
77.4    
77.6    
77.7    
77.9    
78.1    
78.3    
78.5    
78.6    
78.8    
79.0    
79.2    
79.4    
79.6    
79.7    
79.9    
80.1    
80.3    
80.5    
80.7    
80.8    
81.0    
81.2    
81.4    
81.6    
81.8    
81.9    
82.1    
82.3    
82.5    
82.7    
82.8    
83.0    
83.2    
83.4    
83.6    
83.8    
83.9    
84.1    
84.3    
84.5    
84.7    
84.9    
85.0    
85.2    
85.4    
85.6    
85.8    
85.9    
86.1    
86.3    
86.5    
86.7    
86.9    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.1    
88.3    
88.5    
88.7    
88.9    
89.1    
89.2    
89.4    
89.6    
89.8    
90.0    
90.1    
90.3    
90.5    
90.7    
90.9    
91.1    
91.2    
91.4    
91.6    
91.8    
92.0    
92.2    
92.3    
92.5    
92.7    
92.9    
93.1    
93.2    
93.4    
93.6    
93.8    
94.0    
94.2    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.4    
95.6    
95.8    
96.0    
96.2    
96.4    
96.5    
96.7    
96.9    
97.1    
97.3    
97.4    
97.6    
97.8    
98.0    
98.2    
98.4    
98.5    
98.7    
98.9    
99.1    
99.3    
99.5    
99.6    
99.8    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 39908, rend_intergenic: 34192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101562, rend_intergenic: 98800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133822, rend_intergenic: 125604  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