-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_27/scaffold_27_5077981-5209294

-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_58653-T1
Valid prediction for GeneMark_model.102071_t
Valid prediction for pasa_asmbl_36298.p1
Valid prediction for GeneMark_model.102045_t
Valid prediction for GeneMark_model.102059_t
Valid prediction for GeneMark_model.102039_t
Valid prediction for GlimmerHMM_glimmerT_58662-T1
Valid prediction for snap_scaffold_27-snap.1214-T1
Valid prediction for GlimmerHMM_glimmerT_58659-T1
Valid prediction for Augustus_model.g39088.t1
Valid prediction for GeneMark_model.102053_t
Valid prediction for snap_scaffold_27-snap.1209-T1
Valid prediction for snap_scaffold_27-snap.1217-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GeneMark_model.102043_t
Valid prediction for pasa_asmbl_36299.p1
Valid prediction for GeneMark_model.102065_t
Valid prediction for GeneMark_model.102076_t
Valid prediction for GeneMark_model.102061_t
Valid prediction for snap_scaffold_27-snap.1228-T1
Valid prediction for GeneMark_model.102074_t
Valid prediction for GlimmerHMM_glimmerT_58667-T1
Valid prediction for HiQ_model.g39090.t1
Valid prediction for snap_scaffold_27-snap.1231-T1
Valid prediction for HiQ_model.g39086.t1
Valid prediction for Augustus_model.g39089.t1
Valid prediction for GlimmerHMM_glimmerT_58651-T1
Valid prediction for GeneMark_model.102080_t
Valid prediction for Augustus_model.g39092.t1
Valid prediction for snap_scaffold_27-snap.1205-T1
Valid prediction for GeneMark_model.102041_t
Valid prediction for GlimmerHMM_glimmerT_58665-T1
Valid prediction for GeneMark_model.102051_t
Valid prediction for snap_scaffold_27-snap.1213-T1
Valid prediction for CodingQuarry_transcript_41803-T1
Valid prediction for snap_scaffold_27-snap.1229-T1
Valid prediction for snap_scaffold_27-snap.1224-T1
Valid prediction for GeneMark_model.102078_t
Valid prediction for GeneMark_model.102054_t
Valid prediction for snap_scaffold_27-snap.1219-T1
Valid prediction for GeneMark_model.102058_t
Valid prediction for CodingQuarry_transcript_41804-T1
Valid prediction for GeneMark_model.102056_t
Valid prediction for GeneMark_model.102082_t
Valid prediction for GeneMark_model.102047_t
Valid prediction for GeneMark_model.102049_t
Valid prediction for GeneMark_model.102067_t
Valid prediction for snap_scaffold_27-snap.1208-T1
Valid prediction for GeneMark_model.102069_t
Valid prediction for GlimmerHMM_glimmerT_58655-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 snap_scaffold_27-snap.1215-T1
Valid prediction for GlimmerHMM_glimmerT_58661-T1
Valid prediction for Augustus_model.g39087.t1
Valid prediction for snap_scaffold_27-snap.1226-T1
Valid prediction for GeneMark_model.102040_t
Valid prediction for snap_scaffold_27-snap.1227-T1
Valid prediction for snap_scaffold_27-snap.1212-T1
Valid prediction for GeneMark_model.102060_t
Valid prediction for GlimmerHMM_glimmerT_58654-T1
Valid prediction for snap_scaffold_27-snap.1225-T1
Valid prediction for snap_scaffold_27-snap.1232-T1
Valid prediction for GeneMark_model.102063_t
Couldn't classify 79933, 79979
Sorry, prediction pasa_asmbl_36949.p1 fails validation.
(GAC)	 GG	79933-79979	GT	AGG
(GAA)	 AG	80197-80370	GT	AGG
(GGG)	 AG	81521-81629	GA	GAG
-recovered pasa_asmbl_36949.p1, terminal, 81521, 81629
-recovered pasa_asmbl_36949.p1, internal, 80197, 80370
Valid prediction for snap_scaffold_27-snap.1206-T1
Valid prediction for snap_scaffold_27-snap.1216-T1
Valid prediction for GeneMark_model.102048_t
Valid prediction for Augustus_model.g39093.t1
Valid prediction for GlimmerHMM_glimmerT_58652-T1
Valid prediction for GeneMark_model.102044_t
Valid prediction for GlimmerHMM_glimmerT_58664-T1
Valid prediction for snap_scaffold_27-snap.1220-T1
Valid prediction for GlimmerHMM_glimmerT_58658-T1
Valid prediction for snap_scaffold_27-snap.1230-T1
Valid prediction for GeneMark_model.102068_t
Valid prediction for Augustus_model.g39091.t1
Valid prediction for GeneMark_model.102062_t
Valid prediction for Augustus_model.g39094.t1
Valid prediction for GeneMark_model.102042_t
Couldn't classify 79097, 79169
Sorry, prediction pasa_asmbl_36950.p1 fails validation.
(ATG)	 TC	74560-74600	GT	TGG
(GAC)	 AG	77159-77321	GT	AGG
(GTG)	 AG	77436-77634	GT	GTG
(ACC)	 AG	77737-77950	GT	AGG
(GTC)	 AG	79097-79169	GG	AGG
-recovered pasa_asmbl_36950.p1, initial, 74560, 74600
-recovered pasa_asmbl_36950.p1, internal, 77159, 77321
-recovered pasa_asmbl_36950.p1, internal, 77436, 77634
-recovered pasa_asmbl_36950.p1, internal, 77737, 77950
Valid prediction for GeneMark_model.102077_t
Valid prediction for GlimmerHMM_glimmerT_58660-T1
Valid prediction for GlimmerHMM_glimmerT_58663-T1
Valid prediction for GeneMark_model.102075_t
Valid prediction for GeneMark_model.102064_t
Valid prediction for GlimmerHMM_glimmerT_58657-T1
Valid prediction for snap_scaffold_27-snap.1207-T1
Couldn't classify 13641, 13763
Sorry, prediction pasa_asmbl_36952.p1 fails validation.
(CTG)	 GA	13641-13763	GT	AGG
(ATC)	 AG	14753-14929	AA	AGA
-recovered pasa_asmbl_36952.p1, terminal, 14753, 14929
Valid prediction for GeneMark_model.102050_t
Valid prediction for snap_scaffold_27-snap.1222-T1
Valid prediction for snap_scaffold_27-snap.1223-T1
Valid prediction for snap_scaffold_27-snap.1221-T1
Valid prediction for GeneMark_model.102079_t
Valid prediction for GeneMark_model.102073_t
Valid prediction for snap_scaffold_27-snap.1211-T1
Valid prediction for snap_scaffold_27-snap.1218-T1
Valid prediction for GeneMark_model.102070_t
Valid prediction for GeneMark_model.102055_t
Valid prediction for GeneMark_model.102052_t
Valid prediction for GeneMark_model.102046_t
Valid prediction for GlimmerHMM_glimmerT_58656-T1
Valid prediction for snap_scaffold_27-snap.1233-T1
Valid prediction for GeneMark_model.102057_t
Valid prediction for GeneMark_model.102072_t
Valid prediction for GlimmerHMM_glimmerT_58666-T1
Valid prediction for snap_scaffold_27-snap.1210-T1
Valid prediction for GeneMark_model.102066_t
Valid prediction for GeneMark_model.102081_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18338, rend_intergenic: 12554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34475, rend_intergenic: 18438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38716, rend_intergenic: 36209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46867, rend_intergenic: 41153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54418, rend_intergenic: 50873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64361, rend_intergenic: 59375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74030, rend_intergenic: 64803  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82695, rend_intergenic: 74534  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94861, rend_intergenic: 82885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104293, rend_intergenic: 95314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119136, rend_intergenic: 113977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128594, rend_intergenic: 119998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 131314
-exon list size: 585


building trellis

0.2    
0.3    
0.5    
0.7    
0.9    
1.0    
1.2    
1.4    
1.5    
1.7    
1.9    
2.0    
2.2    
2.4    
2.6    
2.7    
2.9    
3.1    
3.2    
3.4    
3.6    
3.7    
3.9    
4.1    
4.3    
4.4    
4.6    
4.8    
4.9    
5.1    
5.3    
5.5    
5.6    
5.8    
6.0    
6.1    
6.3    
6.5    
6.6    
6.8    
7.0    
7.2    
7.3    
7.5    
7.7    
7.8    
8.0    
8.2    
8.3    
8.5    
8.7    
8.9    
9.0    
9.2    
9.4    
9.5    
9.7    
9.9    
10.1    
10.2    
10.4    
10.6    
10.7    
10.9    
11.1    
11.2    
11.4    
11.6    
11.8    
11.9    
12.1    
12.3    
12.4    
12.6    
12.8    
12.9    
13.1    
13.3    
13.5    
13.6    
13.8    
14.0    
14.1    
14.3    
14.5    
14.7    
14.8    
15.0    
15.2    
15.3    
15.5    
15.7    
15.8    
16.0    
16.2    
16.4    
16.5    
16.7    
16.9    
17.0    
17.2    
17.4    
17.5    
17.7    
17.9    
18.1    
18.2    
18.4    
18.6    
18.7    
18.9    
19.1    
19.3    
19.4    
19.6    
19.8    
19.9    
20.1    
20.3    
20.4    
20.6    
20.8    
21.0    
21.1    
21.3    
21.5    
21.6    
21.8    
22.0    
22.1    
22.3    
22.5    
22.7    
22.8    
23.0    
23.2    
23.3    
23.5    
23.7    
23.9    
24.0    
24.2    
24.4    
24.5    
24.7    
24.9    
25.0    
25.2    
25.4    
25.6    
25.7    
25.9    
26.1    
26.2    
26.4    
26.6    
26.7    
26.9    
27.1    
27.3    
27.4    
27.6    
27.8    
27.9    
28.1    
28.3    
28.4    
28.6    
28.8    
29.0    
29.1    
29.3    
29.5    
29.6    
29.8    
30.0    
30.2    
30.3    
30.5    
30.7    
30.8    
31.0    
31.2    
31.3    
31.5    
31.7    
31.9    
32.0    
32.2    
32.4    
32.5    
32.7    
32.9    
33.0    
33.2    
33.4    
33.6    
33.7    
33.9    
34.1    
34.2    
34.4    
34.6    
34.8    
34.9    
35.1    
35.3    
35.4    
35.6    
35.8    
35.9    
36.1    
36.3    
36.5    
36.6    
36.8    
37.0    
37.1    
37.3    
37.5    
37.6    
37.8    
38.0    
38.2    
38.3    
38.5    
38.7    
38.8    
39.0    
39.2    
39.4    
39.5    
39.7    
39.9    
40.0    
40.2    
40.4    
40.5    
40.7    
40.9    
41.1    
41.2    
41.4    
41.6    
41.7    
41.9    
42.1    
42.2    
42.4    
42.6    
42.8    
42.9    
43.1    
43.3    
43.4    
43.6    
43.8    
44.0    
44.1    
44.3    
44.5    
44.6    
44.8    
45.0    
45.1    
45.3    
45.5    
45.7    
45.8    
46.0    
46.2    
46.3    
46.5    
46.7    
46.8    
47.0    
47.2    
47.4    
47.5    
47.7    
47.9    
48.0    
48.2    
48.4    
48.6    
48.7    
48.9    
49.1    
49.2    
49.4    
49.6    
49.7    
49.9    
50.1    
50.3    
50.4    
50.6    
50.8    
50.9    
51.1    
51.3    
51.4    
51.6    
51.8    
52.0    
52.1    
52.3    
52.5    
52.6    
52.8    
53.0    
53.2    
53.3    
53.5    
53.7    
53.8    
54.0    
54.2    
54.3    
54.5    
54.7    
54.9    
55.0    
55.2    
55.4    
55.5    
55.7    
55.9    
56.0    
56.2    
56.4    
56.6    
56.7    
56.9    
57.1    
57.2    
57.4    
57.6    
57.8    
57.9    
58.1    
58.3    
58.4    
58.6    
58.8    
58.9    
59.1    
59.3    
59.5    
59.6    
59.8    
60.0    
60.1    
60.3    
60.5    
60.6    
60.8    
61.0    
61.2    
61.3    
61.5    
61.7    
61.8    
62.0    
62.2    
62.4    
62.5    
62.7    
62.9    
63.0    
63.2    
63.4    
63.5    
63.7    
63.9    
64.1    
64.2    
64.4    
64.6    
64.7    
64.9    
65.1    
65.2    
65.4    
65.6    
65.8    
65.9    
66.1    
66.3    
66.4    
66.6    
66.8    
67.0    
67.1    
67.3    
67.5    
67.6    
67.8    
68.0    
68.1    
68.3    
68.5    
68.7    
68.8    
69.0    
69.2    
69.3    
69.5    
69.7    
69.8    
70.0    
70.2    
70.4    
70.5    
70.7    
70.9    
71.0    
71.2    
71.4    
71.6    
71.7    
71.9    
72.1    
72.2    
72.4    
72.6    
72.7    
72.9    
73.1    
73.3    
73.4    
73.6    
73.8    
73.9    
74.1    
74.3    
74.4    
74.6    
74.8    
75.0    
75.1    
75.3    
75.5    
75.6    
75.8    
76.0    
76.1    
76.3    
76.5    
76.7    
76.8    
77.0    
77.2    
77.3    
77.5    
77.7    
77.9    
78.0    
78.2    
78.4    
78.5    
78.7    
78.9    
79.0    
79.2    
79.4    
79.6    
79.7    
79.9    
80.1    
80.2    
80.4    
80.6    
80.7    
80.9    
81.1    
81.3    
81.4    
81.6    
81.8    
81.9    
82.1    
82.3    
82.5    
82.6    
82.8    
83.0    
83.1    
83.3    
83.5    
83.6    
83.8    
84.0    
84.2    
84.3    
84.5    
84.7    
84.8    
85.0    
85.2    
85.3    
85.5    
85.7    
85.9    
86.0    
86.2    
86.4    
86.5    
86.7    
86.9    
87.1    
87.2    
87.4    
87.6    
87.7    
87.9    
88.1    
88.2    
88.4    
88.6    
88.8    
88.9    
89.1    
89.3    
89.4    
89.6    
89.8    
89.9    
90.1    
90.3    
90.5    
90.6    
90.8    
91.0    
91.1    
91.3    
91.5    
91.7    
91.8    
92.0    
92.2    
92.3    
92.5    
92.7    
92.8    
93.0    
93.2    
93.4    
93.5    
93.7    
93.9    
94.0    
94.2    
94.4    
94.5    
94.7    
94.9    
95.1    
95.2    
95.4    
95.6    
95.7    
95.9    
96.1    
96.3    
96.4    
96.6    
96.8    
96.9    
97.1    
97.3    
97.4    
97.6    
97.8    
98.0    
98.1    
98.3    
98.5    
98.6    
98.8    
99.0    
99.1    
99.3    
99.5    
99.7    
99.8    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 18338, rend_intergenic: 12554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34475, rend_intergenic: 18438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38716, rend_intergenic: 36209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46867, rend_intergenic: 41153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54418, rend_intergenic: 50873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64361, rend_intergenic: 59375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74030, rend_intergenic: 64803  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82695, rend_intergenic: 74534  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94861, rend_intergenic: 82885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104293, rend_intergenic: 95314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119136, rend_intergenic: 113977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128594, rend_intergenic: 119998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support