-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_6185392-6364984

-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_49572-T1
Valid prediction for Augustus_model.g33064.t1
Valid prediction for snap_scaffold_22-snap.1219-T1
Valid prediction for snap_scaffold_22-snap.1202-T1
Valid prediction for snap_scaffold_22-snap.1196-T1
Valid prediction for snap_scaffold_22-snap.1193-T1
Valid prediction for snap_scaffold_22-snap.1203-T1
Valid prediction for Augustus_model.g33066.t1
Valid prediction for GlimmerHMM_glimmerT_49573-T1
Valid prediction for snap_scaffold_22-snap.1216-T1
Valid prediction for snap_scaffold_22-snap.1208-T1
Valid prediction for snap_scaffold_22-snap.1211-T1
Valid prediction for Augustus_model.g33069.t1
Valid prediction for snap_scaffold_22-snap.1221-T1
Valid prediction for GlimmerHMM_glimmerT_49578-T1
Valid prediction for GlimmerHMM_glimmerT_49575-T1
Valid prediction for snap_scaffold_22-snap.1191-T1
Valid prediction for snap_scaffold_22-snap.1199-T1
Valid prediction for snap_scaffold_22-snap.1186-T1
Valid prediction for GlimmerHMM_glimmerT_49571-T1
Valid prediction for snap_scaffold_22-snap.1214-T1
Valid prediction for snap_scaffold_22-snap.1209-T1
Valid prediction for snap_scaffold_22-snap.1194-T1
Valid prediction for Augustus_model.g33070.t1
Valid prediction for Augustus_model.g33061.t1
Valid prediction for snap_scaffold_22-snap.1215-T1
Valid prediction for snap_scaffold_22-snap.1207-T1
Valid prediction for GlimmerHMM_glimmerT_49569-T1
Valid prediction for snap_scaffold_22-snap.1224-T1
Valid prediction for GlimmerHMM_glimmerT_49579-T1
Valid prediction for GlimmerHMM_glimmerT_49574-T1
Valid prediction for GlimmerHMM_glimmerT_49580-T1
Valid prediction for snap_scaffold_22-snap.1189-T1
Valid prediction for GlimmerHMM_glimmerT_49582-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_22-snap.1217-T1
Valid prediction for GlimmerHMM_glimmerT_49564-T1
Valid prediction for Augustus_model.g33067.t1
Valid prediction for GlimmerHMM_glimmerT_49566-T1
Valid prediction for snap_scaffold_22-snap.1204-T1
Valid prediction for HiQ_model.g33059.t1
Valid prediction for HiQ_model.g33068.t1
Valid prediction for snap_scaffold_22-snap.1210-T1
Valid prediction for Augustus_model.g33063.t1
Valid prediction for GlimmerHMM_glimmerT_49581-T1
Valid prediction for snap_scaffold_22-snap.1226-T1
Valid prediction for snap_scaffold_22-snap.1197-T1
Couldn't classify 161653, 161794
Couldn't classify 162513, 162635
Sorry, prediction pasa_asmbl_29323.p1 fails validation.
(GTG)	 AC	161653-161794	GT	AGG
(GTG)	 AG	162030-162253	GT	AGG
(ATC)	 AG	162513-162635	GC	TGG
-recovered pasa_asmbl_29323.p1, internal, 162030, 162253
-recovered pasa_asmbl_29323.p1, internal, 162513, 162635
Valid prediction for GlimmerHMM_glimmerT_49560-T1
Valid prediction for snap_scaffold_22-snap.1205-T1
Valid prediction for snap_scaffold_22-snap.1187-T1
Valid prediction for snap_scaffold_22-snap.1183-T1
Valid prediction for snap_scaffold_22-snap.1200-T1
Valid prediction for snap_scaffold_22-snap.1185-T1
Valid prediction for GlimmerHMM_glimmerT_49565-T1
Valid prediction for snap_scaffold_22-snap.1206-T1
Valid prediction for snap_scaffold_22-snap.1220-T1
Valid prediction for Augustus_model.g33058.t1
Valid prediction for GlimmerHMM_glimmerT_49577-T1
Valid prediction for snap_scaffold_22-snap.1195-T1
Valid prediction for CodingQuarry_transcript_34182-T1
Valid prediction for Augustus_model.g33065.t1
Valid prediction for snap_scaffold_22-snap.1188-T1
Valid prediction for snap_scaffold_22-snap.1190-T1
Valid prediction for snap_scaffold_22-snap.1213-T1
Valid prediction for Augustus_model.g33056.t1
Valid prediction for snap_scaffold_22-snap.1223-T1
Valid prediction for CodingQuarry_transcript_34183-T1
Valid prediction for snap_scaffold_22-snap.1222-T1
Valid prediction for snap_scaffold_22-snap.1184-T1
Valid prediction for pasa_asmbl_29326.p1
Valid prediction for GlimmerHMM_glimmerT_49568-T1
Valid prediction for snap_scaffold_22-snap.1198-T1
Valid prediction for GlimmerHMM_glimmerT_49570-T1
Valid prediction for GlimmerHMM_glimmerT_49563-T1
Valid prediction for GlimmerHMM_glimmerT_49567-T1
Valid prediction for GlimmerHMM_glimmerT_49559-T1
Valid prediction for GlimmerHMM_glimmerT_49576-T1
Couldn't classify 38123, 38225
Sorry, prediction pasa_asmbl_29331.p1 fails validation.
(ACT)	 TC	38123-38225	GT	CGG
(GTT)	 AG	38458-38495	GT	AAG
(TTG)	 AG	38650-38730	GT	TGG
(GCT)	 AG	39145-39288	CC	GAC
-recovered pasa_asmbl_29331.p1, terminal, 39145, 39288
-recovered pasa_asmbl_29331.p1, internal, 38458, 38495
-recovered pasa_asmbl_29331.p1, internal, 38650, 38730
Valid prediction for snap_scaffold_22-snap.1192-T1
Valid prediction for snap_scaffold_22-snap.1212-T1
Valid prediction for GlimmerHMM_glimmerT_49561-T1
Valid prediction for Augustus_model.g33062.t1
Valid prediction for GlimmerHMM_glimmerT_49562-T1
Valid prediction for Augustus_model.g33060.t1
Couldn't classify 53240, 53329
Couldn't classify 53728, 54015
Sorry, prediction pasa_asmbl_29329.p2 fails validation.
(GCC)	 AG	53240-53329	GT	AGG
(GTT)	 AG	53728-54015	AC	TGA
-recovered pasa_asmbl_29329.p2, internal, 53240, 53329
Valid prediction for snap_scaffold_22-snap.1218-T1
Valid prediction for Augustus_model.g33057.t1
Valid prediction for snap_scaffold_22-snap.1225-T1
Valid prediction for snap_scaffold_22-snap.1201-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15915, rend_intergenic: 11368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24493, rend_intergenic: 20074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27786, rend_intergenic: 24604  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34300, rend_intergenic: 28348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36628, rend_intergenic: 34662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44061, rend_intergenic: 40174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55844, rend_intergenic: 46327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62114, rend_intergenic: 55867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66936, rend_intergenic: 63123  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79314, rend_intergenic: 67598  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95019, rend_intergenic: 80428  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111939, rend_intergenic: 95315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117096, rend_intergenic: 112827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121194, rend_intergenic: 117538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131413, rend_intergenic: 123028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135832, rend_intergenic: 131870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151896, rend_intergenic: 146308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167834, rend_intergenic: 157459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170991, rend_intergenic: 168928  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179468, rend_intergenic: 171872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 179593
-exon list size: 329


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
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3.6    
3.9    
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4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
13.9    
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    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
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    
29.0    
29.3    
29.6    
29.9    
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    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
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41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.1    
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    
48.3    
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    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
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60.1    
60.4    
60.7    
61.0    
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61.6    
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63.1    
63.4    
63.7    
64.0    
64.4    
64.7    
65.0    
65.3    
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65.9    
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67.1    
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68.6    
68.9    
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71.3    
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84.6    
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85.5    
85.8    
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86.7    
87.0    
87.3    
87.6    
87.9    
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89.4    
89.7    
90.0    
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90.6    
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91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.1    
93.4    
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94.0    
94.3    
94.6    
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95.2    
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96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 15915, rend_intergenic: 11368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24493, rend_intergenic: 20074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27786, rend_intergenic: 24604  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34300, rend_intergenic: 28348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36628, rend_intergenic: 34662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44061, rend_intergenic: 40174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55844, rend_intergenic: 46327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62114, rend_intergenic: 55867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66936, rend_intergenic: 63123  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79314, rend_intergenic: 67598  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95019, rend_intergenic: 80428  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111939, rend_intergenic: 95315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117096, rend_intergenic: 112827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121194, rend_intergenic: 117538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131413, rend_intergenic: 123028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135832, rend_intergenic: 131870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151896, rend_intergenic: 146308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167834, rend_intergenic: 157459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170991, rend_intergenic: 168928  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179468, rend_intergenic: 171872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support