-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_4/scaffold_4_10460793-10631827

-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 snap_scaffold_4-snap.2245-T1
Valid prediction for snap_scaffold_4-snap.2266-T1
Valid prediction for snap_scaffold_4-snap.2263-T1
Valid prediction for Augustus_model.g6568.t1
Valid prediction for GlimmerHMM_glimmerT_10104-T1
Valid prediction for snap_scaffold_4-snap.2238-T1
Valid prediction for Augustus_model.g6561.t1
Valid prediction for snap_scaffold_4-snap.2247-T1
Valid prediction for snap_scaffold_4-snap.2251-T1
Valid prediction for Augustus_model.g6565.t1
Valid prediction for Augustus_model.g6559.t1
Valid prediction for GlimmerHMM_glimmerT_10108-T1
Valid prediction for GlimmerHMM_glimmerT_10109-T1
Valid prediction for GlimmerHMM_glimmerT_10107-T1
Valid prediction for snap_scaffold_4-snap.2243-T1
Valid prediction for GlimmerHMM_glimmerT_10101-T1
Valid prediction for CodingQuarry_transcript_49118-T1
Valid prediction for GlimmerHMM_glimmerT_10114-T1
Valid prediction for snap_scaffold_4-snap.2225-T1
Valid prediction for Augustus_model.g6560.t1
Valid prediction for snap_scaffold_4-snap.2248-T1
Valid prediction for pasa_asmbl_41665.p1
Valid prediction for Augustus_model.g6572.t1
Valid prediction for Augustus_model.g6571.t1
Valid prediction for GlimmerHMM_glimmerT_10103-T1
Valid prediction for Augustus_model.g6562.t1
Valid prediction for snap_scaffold_4-snap.2252-T1
Valid prediction for HiQ_model.g6558.t1
Valid prediction for Augustus_model.g6567.t1
Valid prediction for snap_scaffold_4-snap.2235-T1
Valid prediction for snap_scaffold_4-snap.2255-T1
Valid prediction for Augustus_model.g6556.t1
Valid prediction for pasa_asmbl_41664.p1
Valid prediction for snap_scaffold_4-snap.2239-T1
Valid prediction for snap_scaffold_4-snap.2265-T1
Valid prediction for GlimmerHMM_glimmerT_10095-T1
Valid prediction for snap_scaffold_4-snap.2233-T1
Valid prediction for snap_scaffold_4-snap.2231-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_10105-T1
Valid prediction for snap_scaffold_4-snap.2261-T1
Valid prediction for snap_scaffold_4-snap.2229-T1
Valid prediction for snap_scaffold_4-snap.2250-T1
Valid prediction for GlimmerHMM_glimmerT_10100-T1
Valid prediction for CodingQuarry_transcript_49116-T1
Valid prediction for Augustus_model.g6563.t1
Valid prediction for GlimmerHMM_glimmerT_10098-T1
Valid prediction for snap_scaffold_4-snap.2257-T1
Valid prediction for CodingQuarry_transcript_49119-T1
Valid prediction for Augustus_model.g6566.t1
Valid prediction for GlimmerHMM_glimmerT_10112-T1
Valid prediction for GlimmerHMM_glimmerT_10099-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_10111-T1
Valid prediction for snap_scaffold_4-snap.2256-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_10102-T1
Valid prediction for snap_scaffold_4-snap.2244-T1
Valid prediction for snap_scaffold_4-snap.2228-T1
Valid prediction for snap_scaffold_4-snap.2232-T1
Valid prediction for pasa_asmbl_42855.p1
Valid prediction for GlimmerHMM_glimmerT_10097-T1
Valid prediction for GlimmerHMM_glimmerT_10096-T1
Couldn't classify 38621, 38764
Sorry, prediction pasa_asmbl_42858.p1 fails validation.
(ATG)	 AA	34304-34555	GT	AGG
(GCG)	 AG	35097-35255	GT	CGG
(GTC)	 AG	35481-35660	GT	AAG
(GGG)	 AG	37140-37329	GT	AGG
(GAA)	 AG	37615-37771	GT	AAG
(CGA)	 AG	38022-38163	GT	TGG
(CAT)	 AG	38621-38764	TG	GGT
-recovered pasa_asmbl_42858.p1, initial, 34304, 34555
-recovered pasa_asmbl_42858.p1, internal, 35097, 35255
-recovered pasa_asmbl_42858.p1, internal, 35481, 35660
-recovered pasa_asmbl_42858.p1, internal, 37140, 37329
-recovered pasa_asmbl_42858.p1, internal, 37615, 37771
-recovered pasa_asmbl_42858.p1, internal, 38022, 38163
Valid prediction for snap_scaffold_4-snap.2253-T1
Valid prediction for snap_scaffold_4-snap.2234-T1
Valid prediction for Augustus_model.g6570.t1
Valid prediction for snap_scaffold_4-snap.2246-T1
Valid prediction for Augustus_model.g6564.t1
Valid prediction for snap_scaffold_4-snap.2237-T1
Valid prediction for snap_scaffold_4-snap.2249-T1
Valid prediction for snap_scaffold_4-snap.2264-T1
Valid prediction for Augustus_model.g6569.t1
Valid prediction for snap_scaffold_4-snap.2227-T1
Valid prediction for snap_scaffold_4-snap.2226-T1
Valid prediction for snap_scaffold_4-snap.2258-T1
Valid prediction for GlimmerHMM_glimmerT_10113-T1
Valid prediction for snap_scaffold_4-snap.2236-T1
Valid prediction for snap_scaffold_4-snap.2230-T1
Valid prediction for snap_scaffold_4-snap.2260-T1
Valid prediction for snap_scaffold_4-snap.2262-T1
Valid prediction for snap_scaffold_4-snap.2241-T1
Valid prediction for GlimmerHMM_glimmerT_10106-T1
Valid prediction for HiQ_model.g6557.t1
Valid prediction for snap_scaffold_4-snap.2242-T1
Valid prediction for GlimmerHMM_glimmerT_10110-T1
Valid prediction for snap_scaffold_4-snap.2254-T1
Valid prediction for snap_scaffold_4-snap.2240-T1
Valid prediction for snap_scaffold_4-snap.2259-T1
Valid prediction for CodingQuarry_transcript_49117-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16818, rend_intergenic: 10960  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35162, rend_intergenic: 19966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43985, rend_intergenic: 39873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47622, rend_intergenic: 45565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49828, rend_intergenic: 47831  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59631, rend_intergenic: 50931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63650, rend_intergenic: 60716  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71542, rend_intergenic: 64814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83683, rend_intergenic: 74818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94458, rend_intergenic: 93049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113819, rend_intergenic: 106967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117949, rend_intergenic: 116997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136732, rend_intergenic: 132889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145947, rend_intergenic: 142384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 171035
-exon list size: 291


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.1    
3.4    
3.8    
4.1    
4.4    
4.8    
5.1    
5.5    
5.8    
6.1    
6.5    
6.8    
7.2    
7.5    
7.8    
8.2    
8.5    
8.9    
9.2    
9.6    
9.9    
10.2    
10.6    
10.9    
11.3    
11.6    
11.9    
12.3    
12.6    
13.0    
13.3    
13.7    
14.0    
14.3    
14.7    
15.0    
15.4    
15.7    
16.0    
16.4    
16.7    
17.1    
17.4    
17.7    
18.1    
18.4    
18.8    
19.1    
19.5    
19.8    
20.1    
20.5    
20.8    
21.2    
21.5    
21.8    
22.2    
22.5    
22.9    
23.2    
23.5    
23.9    
24.2    
24.6    
24.9    
25.3    
25.6    
25.9    
26.3    
26.6    
27.0    
27.3    
27.6    
28.0    
28.3    
28.7    
29.0    
29.4    
29.7    
30.0    
30.4    
30.7    
31.1    
31.4    
31.7    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.5    
34.8    
35.2    
35.5    
35.8    
36.2    
36.5    
36.9    
37.2    
37.5    
37.9    
38.2    
38.6    
38.9    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.3    
41.6    
42.0    
42.3    
42.7    
43.0    
43.3    
43.7    
44.0    
44.4    
44.7    
45.1    
45.4    
45.7    
46.1    
46.4    
46.8    
47.1    
47.4    
47.8    
48.1    
48.5    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.5    
51.9    
52.2    
52.6    
52.9    
53.2    
53.6    
53.9    
54.3    
54.6    
54.9    
55.3    
55.6    
56.0    
56.3    
56.7    
57.0    
57.3    
57.7    
58.0    
58.4    
58.7    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.1    
61.4    
61.8    
62.1    
62.5    
62.8    
63.1    
63.5    
63.8    
64.2    
64.5    
64.8    
65.2    
65.5    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.3    
68.6    
68.9    
69.3    
69.6    
70.0    
70.3    
70.6    
71.0    
71.3    
71.7    
72.0    
72.4    
72.7    
73.0    
73.4    
73.7    
74.1    
74.4    
74.7    
75.1    
75.4    
75.8    
76.1    
76.5    
76.8    
77.1    
77.5    
77.8    
78.2    
78.5    
78.8    
79.2    
79.5    
79.9    
80.2    
80.5    
80.9    
81.2    
81.6    
81.9    
82.3    
82.6    
82.9    
83.3    
83.6    
84.0    
84.3    
84.6    
85.0    
85.3    
85.7    
86.0    
86.3    
86.7    
87.0    
87.4    
87.7    
88.1    
88.4    
88.7    
89.1    
89.4    
89.8    
90.1    
90.4    
90.8    
91.1    
91.5    
91.8    
92.2    
92.5    
92.8    
93.2    
93.5    
93.9    
94.2    
94.5    
94.9    
95.2    
95.6    
95.9    
96.2    
96.6    
96.9    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 16818, rend_intergenic: 10960  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35162, rend_intergenic: 19966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43985, rend_intergenic: 39873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47622, rend_intergenic: 45565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49828, rend_intergenic: 47831  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59631, rend_intergenic: 50931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63650, rend_intergenic: 60716  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71542, rend_intergenic: 64814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83683, rend_intergenic: 74818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94458, rend_intergenic: 93049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113819, rend_intergenic: 106967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117949, rend_intergenic: 116997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136732, rend_intergenic: 132889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145947, rend_intergenic: 142384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support