-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_16705441-16933700

-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_16318-T1
Valid prediction for snap_scaffold_6-snap.3552-T1
Valid prediction for snap_scaffold_6-snap.3582-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_16328-T1
Valid prediction for GlimmerHMM_glimmerT_16326-T1
Valid prediction for snap_scaffold_6-snap.3559-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_16315-T1
Valid prediction for GlimmerHMM_glimmerT_16332-T1
Valid prediction for GlimmerHMM_glimmerT_16316-T1
Valid prediction for snap_scaffold_6-snap.3551-T1
Valid prediction for snap_scaffold_6-snap.3563-T1
Valid prediction for snap_scaffold_6-snap.3586-T1
Valid prediction for snap_scaffold_6-snap.3546-T1
Valid prediction for Augustus_model.g10940.t1
Valid prediction for Augustus_model.g10942.t1
Valid prediction for GlimmerHMM_glimmerT_16317-T1
Valid prediction for GlimmerHMM_glimmerT_16320-T1
Valid prediction for GlimmerHMM_glimmerT_16340-T1
Valid prediction for Augustus_model.g10938.t1
Valid prediction for snap_scaffold_6-snap.3562-T1
Valid prediction for Augustus_model.g10957.t1
Valid prediction for snap_scaffold_6-snap.3548-T1
Valid prediction for snap_scaffold_6-snap.3566-T1
Valid prediction for snap_scaffold_6-snap.3577-T1
Valid prediction for Augustus_model.g10943.t1
Valid prediction for GlimmerHMM_glimmerT_16325-T1
Valid prediction for snap_scaffold_6-snap.3556-T1
Valid prediction for snap_scaffold_6-snap.3544-T1
Valid prediction for snap_scaffold_6-snap.3554-T1
Valid prediction for Augustus_model.g10959.t1
Valid prediction for snap_scaffold_6-snap.3550-T1
Valid prediction for snap_scaffold_6-snap.3584-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.g10954.t1
Valid prediction for CodingQuarry_transcript_55388-T1
Valid prediction for snap_scaffold_6-snap.3568-T1
Valid prediction for snap_scaffold_6-snap.3545-T1
Valid prediction for GlimmerHMM_glimmerT_16322-T1
Valid prediction for Augustus_model.g10947.t1
Valid prediction for GlimmerHMM_glimmerT_16331-T1
Valid prediction for snap_scaffold_6-snap.3578-T1
Valid prediction for snap_scaffold_6-snap.3558-T1
Valid prediction for HiQ_model.g10950.t1
Valid prediction for snap_scaffold_6-snap.3585-T1
Valid prediction for HiQ_model.g10951.t1
Valid prediction for snap_scaffold_6-snap.3549-T1
Valid prediction for snap_scaffold_6-snap.3573-T1
Valid prediction for pasa_asmbl_49168.p1
Valid prediction for Augustus_model.g10939.t1
Couldn't classify 44195, 45083
Sorry, prediction pasa_asmbl_49175.p1 fails validation.
(AGA)	 TG	44195-45083	GT	AGG
(AGG)	 AG	46363-46637	TG	GAT
-recovered pasa_asmbl_49175.p1, terminal, 46363, 46637
Valid prediction for snap_scaffold_6-snap.3555-T1
Valid prediction for GlimmerHMM_glimmerT_16329-T1
Valid prediction for CodingQuarry_transcript_55386-T1
Valid prediction for Augustus_model.g10946.t1
Valid prediction for HiQ_model.g10956.t1
Valid prediction for snap_scaffold_6-snap.3570-T1
Valid prediction for Augustus_model.g10945.t1
Valid prediction for GlimmerHMM_glimmerT_16341-T1
Valid prediction for GlimmerHMM_glimmerT_16330-T1
Valid prediction for CodingQuarry_transcript_55389-T1
Valid prediction for snap_scaffold_6-snap.3576-T1
Valid prediction for CodingQuarry_transcript_55387-T1
Valid prediction for Augustus_model.g10944.t1
Valid prediction for GlimmerHMM_glimmerT_16335-T1
Valid prediction for HiQ_model.g10955.t1
Valid prediction for snap_scaffold_6-snap.3565-T1
Valid prediction for snap_scaffold_6-snap.3560-T1
Valid prediction for GlimmerHMM_glimmerT_16323-T1
Valid prediction for Augustus_model.g10958.t1
Valid prediction for snap_scaffold_6-snap.3569-T1
Valid prediction for snap_scaffold_6-snap.3567-T1
Couldn't classify 15602, 15703
Sorry, prediction pasa_asmbl_49179.p1 fails validation.
(CTT)	 TG	15602-15703	GT	AGG
(GTA)	 AG	15863-16177	TC	AGT
-recovered pasa_asmbl_49179.p1, terminal, 15863, 16177
Valid prediction for GlimmerHMM_glimmerT_16314-T1
Valid prediction for snap_scaffold_6-snap.3581-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.3547-T1
Valid prediction for snap_scaffold_6-snap.3571-T1
Valid prediction for Augustus_model.g10952.t1
Valid prediction for GlimmerHMM_glimmerT_16338-T1
Valid prediction for snap_scaffold_6-snap.3564-T1
Valid prediction for GlimmerHMM_glimmerT_16333-T1
Valid prediction for GlimmerHMM_glimmerT_16336-T1
Valid prediction for HiQ_model.g10953.t1
Valid prediction for snap_scaffold_6-snap.3583-T1
Valid prediction for HiQ_model.g10949.t1
Valid prediction for HiQ_model.g10948.t1
Valid prediction for GlimmerHMM_glimmerT_16327-T1
Valid prediction for snap_scaffold_6-snap.3561-T1
Valid prediction for GlimmerHMM_glimmerT_16324-T1
Couldn't classify 11377, 11436
Sorry, prediction pasa_asmbl_49416.p1 fails validation.
(TTC)	 GT	11377-11436	GT	AAG
(GTG)	 AG	11786-11958	GT	AGG
(GGT)	 AG	12597-12666	GG	GAG
-recovered pasa_asmbl_49416.p1, terminal, 12597, 12666
-recovered pasa_asmbl_49416.p1, internal, 11786, 11958
Valid prediction for GlimmerHMM_glimmerT_16334-T1
Couldn't classify 125294, 125851
Sorry, prediction pasa_asmbl_49153.p1 fails validation.
(AAG)	 TG	125294-125851	CA	AGC
Valid prediction for snap_scaffold_6-snap.3580-T1
Valid prediction for GlimmerHMM_glimmerT_16319-T1
Valid prediction for Augustus_model.g10941.t1
Valid prediction for pasa_asmbl_49158.p1
Valid prediction for snap_scaffold_6-snap.3574-T1
Valid prediction for GlimmerHMM_glimmerT_16337-T1
Valid prediction for snap_scaffold_6-snap.3579-T1
Valid prediction for snap_scaffold_6-snap.3572-T1
Couldn't classify 99604, 99655
Sorry, prediction pasa_asmbl_49156.p1 fails validation.
(CGT)	 CT	99604-99655	GT	TGG
(TGA)	 AG	100628-100959	CC	AGC
-recovered pasa_asmbl_49156.p1, terminal, 100628, 100959
Valid prediction for GlimmerHMM_glimmerT_16321-T1
Valid prediction for GlimmerHMM_glimmerT_16339-T1
Valid prediction for snap_scaffold_6-snap.3575-T1
Valid prediction for snap_scaffold_6-snap.3553-T1
Valid prediction for snap_scaffold_6-snap.3557-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7725, rend_intergenic: 3346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13552, rend_intergenic: 11327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14572, rend_intergenic: 14210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18772, rend_intergenic: 16179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34176, rend_intergenic: 19802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39655, rend_intergenic: 35336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42305, rend_intergenic: 39708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47267, rend_intergenic: 42888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54837, rend_intergenic: 47954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57103, rend_intergenic: 56427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65324, rend_intergenic: 57187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70105, rend_intergenic: 65508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77498, rend_intergenic: 70301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215748, rend_intergenic: 214498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223214, rend_intergenic: 219477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226204, rend_intergenic: 224198  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 228260
-exon list size: 323


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.5    
5.8    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.0    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.8    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.8    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.2    
74.5    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
80.0    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.2    
94.5    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 7725, rend_intergenic: 3346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13552, rend_intergenic: 11327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14572, rend_intergenic: 14210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18772, rend_intergenic: 16179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34176, rend_intergenic: 19802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39655, rend_intergenic: 35336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42305, rend_intergenic: 39708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47267, rend_intergenic: 42888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54837, rend_intergenic: 47954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57103, rend_intergenic: 56427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65324, rend_intergenic: 57187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70105, rend_intergenic: 65508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77498, rend_intergenic: 70301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215748, rend_intergenic: 214498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223214, rend_intergenic: 219477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226204, rend_intergenic: 224198  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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