-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_4870395-5016425

-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_15-snap.1053-T1
Couldn't classify 98019, 98444
Sorry, prediction pasa_asmbl_14174.p1 fails validation.
(ATC)	 CC	98019-98444	AG	AAA
Valid prediction for GlimmerHMM_glimmerT_36099-T1
Valid prediction for snap_scaffold_15-snap.1070-T1
Valid prediction for snap_scaffold_15-snap.1086-T1
Valid prediction for snap_scaffold_15-snap.1059-T1
Valid prediction for snap_scaffold_15-snap.1078-T1
Valid prediction for CodingQuarry_transcript_17993-T1
Valid prediction for snap_scaffold_15-snap.1063-T1
Valid prediction for snap_scaffold_15-snap.1089-T1
Valid prediction for snap_scaffold_15-snap.1079-T1
Valid prediction for Augustus_model.g24070.t1
Valid prediction for snap_scaffold_15-snap.1088-T1
Valid prediction for Augustus_model.g24074.t1
Couldn't classify 136161, 136719
Sorry, prediction pasa_asmbl_15187.p1 fails validation.
(ACG)	 CA	136161-136719	GT	GGG
(GCC)	 AG	136856-137061	GT	TGG
(GTC)	 AG	137205-137813	CA	AAC
-recovered pasa_asmbl_15187.p1, terminal, 137205, 137813
-recovered pasa_asmbl_15187.p1, internal, 136856, 137061
Valid prediction for snap_scaffold_15-snap.1058-T1
Valid prediction for GlimmerHMM_glimmerT_36115-T1
Valid prediction for pasa_asmbl_15179.p1
Valid prediction for Augustus_model.g24079.t1
Valid prediction for snap_scaffold_15-snap.1054-T1
Valid prediction for snap_scaffold_15-snap.1082-T1
Valid prediction for snap_scaffold_15-snap.1076-T1
Valid prediction for snap_scaffold_15-snap.1073-T1
Valid prediction for HiQ_model.g24078.t1
Valid prediction for HiQ_model.g24072.t1
Valid prediction for pasa_asmbl_15183.p1
Valid prediction for GlimmerHMM_glimmerT_36109-T1
Valid prediction for GlimmerHMM_glimmerT_36100-T1
Valid prediction for snap_scaffold_15-snap.1069-T1
Valid prediction for snap_scaffold_15-snap.1075-T1
Valid prediction for GlimmerHMM_glimmerT_36107-T1
Valid prediction for snap_scaffold_15-snap.1090-T1
Valid prediction for GlimmerHMM_glimmerT_36113-T1
Valid prediction for GlimmerHMM_glimmerT_36094-T1
Valid prediction for GlimmerHMM_glimmerT_36106-T1
Valid prediction for Augustus_model.g24067.t1
Valid prediction for GlimmerHMM_glimmerT_36112-T1
Valid prediction for snap_scaffold_15-snap.1061-T1
Valid prediction for snap_scaffold_15-snap.1062-T1
Valid prediction for snap_scaffold_15-snap.1087-T1
Valid prediction for snap_scaffold_15-snap.1067-T1
Valid prediction for GlimmerHMM_glimmerT_36104-T1
Valid prediction for snap_scaffold_15-snap.1081-T1
Valid prediction for GlimmerHMM_glimmerT_36102-T1
Valid prediction for snap_scaffold_15-snap.1068-T1
Valid prediction for GlimmerHMM_glimmerT_36101-T1
Valid prediction for snap_scaffold_15-snap.1056-T1
Valid prediction for snap_scaffold_15-snap.1060-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_36114-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 CodingQuarry_transcript_17995-T1
Valid prediction for snap_scaffold_15-snap.1084-T1
Valid prediction for snap_scaffold_15-snap.1064-T1
Valid prediction for CodingQuarry_transcript_17996-T1
Valid prediction for snap_scaffold_15-snap.1057-T1
Valid prediction for HiQ_model.g24075.t1
Valid prediction for snap_scaffold_15-snap.1055-T1
Valid prediction for snap_scaffold_15-snap.1080-T1
Valid prediction for GlimmerHMM_glimmerT_36092-T1
Valid prediction for Augustus_model.g24066.t1
Valid prediction for snap_scaffold_15-snap.1072-T1
Valid prediction for GlimmerHMM_glimmerT_36103-T1
Valid prediction for snap_scaffold_15-snap.1065-T1
Valid prediction for CodingQuarry_transcript_17997-T1
Valid prediction for GlimmerHMM_glimmerT_36091-T1
Valid prediction for Augustus_model.g24077.t1
Valid prediction for Augustus_model.g24068.t1
Valid prediction for GlimmerHMM_glimmerT_36110-T1
Valid prediction for GlimmerHMM_glimmerT_36105-T1
Valid prediction for Augustus_model.g24076.t1
Valid prediction for Augustus_model.g24069.t1
Valid prediction for snap_scaffold_15-snap.1074-T1
Valid prediction for Augustus_model.g24065.t1
Valid prediction for snap_scaffold_15-snap.1066-T1
Valid prediction for CodingQuarry_transcript_17992-T1
Valid prediction for Augustus_model.g24073.t1
Valid prediction for snap_scaffold_15-snap.1071-T1
Valid prediction for GlimmerHMM_glimmerT_36096-T1
Valid prediction for GlimmerHMM_glimmerT_36090-T1
Valid prediction for CodingQuarry_transcript_17994-T1
Valid prediction for snap_scaffold_15-snap.1083-T1
Valid prediction for pasa_asmbl_14179.p1
Valid prediction for pasa_asmbl_14180.p1
Valid prediction for snap_scaffold_15-snap.1077-T1
Valid prediction for snap_scaffold_15-snap.1085-T1
Couldn't classify 26482, 26680
Sorry, prediction pasa_asmbl_14187.p1 fails validation.
(CCA)	 GT	26482-26680	GT	CGG
(TGT)	 AG	26770-26964	GT	AGG
(ACA)	 AG	27083-27221	GT	AGG
(GAG)	 AG	27705-28117	GT	CGG
(ATA)	 AG	28231-28256	AG	GAA
-recovered pasa_asmbl_14187.p1, terminal, 28231, 28256
-recovered pasa_asmbl_14187.p1, internal, 26770, 26964
-recovered pasa_asmbl_14187.p1, internal, 27083, 27221
-recovered pasa_asmbl_14187.p1, internal, 27705, 28117
Valid prediction for GlimmerHMM_glimmerT_36093-T1
Valid prediction for GlimmerHMM_glimmerT_36108-T1
Valid prediction for GlimmerHMM_glimmerT_36111-T1
Valid prediction for GlimmerHMM_glimmerT_36095-T1
Valid prediction for snap_scaffold_15-snap.1052-T1
Valid prediction for GlimmerHMM_glimmerT_36098-T1
Valid prediction for Augustus_model.g24071.t1
Valid prediction for GlimmerHMM_glimmerT_36097-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11766, rend_intergenic: 2858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17083, rend_intergenic: 12897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21107, rend_intergenic: 18963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43580, rend_intergenic: 21966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60319, rend_intergenic: 48282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63955, rend_intergenic: 61521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68326, rend_intergenic: 64188  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72213, rend_intergenic: 71410  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83971, rend_intergenic: 82165  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132818, rend_intergenic: 118798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 146031
-exon list size: 340


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.0    
2.3    
2.6    
2.9    
3.2    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.4    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.4    
16.7    
17.0    
17.3    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.5    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.5    
67.8    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.7    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.4    
97.7    
98.0    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 11766, rend_intergenic: 2858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17083, rend_intergenic: 12897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21107, rend_intergenic: 18963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43580, rend_intergenic: 21966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60319, rend_intergenic: 48282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63955, rend_intergenic: 61521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68326, rend_intergenic: 64188  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72213, rend_intergenic: 71410  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83971, rend_intergenic: 82165  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132818, rend_intergenic: 118798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support