-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_5927601-6167497

-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_51103-T1
Valid prediction for GlimmerHMM_glimmerT_51108-T1
Valid prediction for snap_scaffold_23-snap.1069-T1
Valid prediction for snap_scaffold_23-snap.1102-T1
Valid prediction for snap_scaffold_23-snap.1088-T1
Valid prediction for GlimmerHMM_glimmerT_51098-T1
Valid prediction for snap_scaffold_23-snap.1076-T1
Valid prediction for GlimmerHMM_glimmerT_51105-T1
Valid prediction for snap_scaffold_23-snap.1094-T1
Valid prediction for GlimmerHMM_glimmerT_51110-T1
Valid prediction for GlimmerHMM_glimmerT_51116-T1
Valid prediction for snap_scaffold_23-snap.1066-T1
Valid prediction for snap_scaffold_23-snap.1100-T1
Valid prediction for snap_scaffold_23-snap.1103-T1
Valid prediction for snap_scaffold_23-snap.1083-T1
Valid prediction for snap_scaffold_23-snap.1105-T1
Valid prediction for GlimmerHMM_glimmerT_51125-T1
Valid prediction for GlimmerHMM_glimmerT_51113-T1
Valid prediction for Augustus_model.g34201.t1
Valid prediction for snap_scaffold_23-snap.1092-T1
Valid prediction for Augustus_model.g34198.t1
Valid prediction for GlimmerHMM_glimmerT_51126-T1
Valid prediction for Augustus_model.g34202.t1
Valid prediction for snap_scaffold_23-snap.1097-T1
Valid prediction for snap_scaffold_23-snap.1080-T1
Valid prediction for snap_scaffold_23-snap.1101-T1
Valid prediction for GlimmerHMM_glimmerT_51120-T1
Valid prediction for snap_scaffold_23-snap.1073-T1
Valid prediction for Augustus_model.g34205.t1
Valid prediction for Augustus_model.g34200.t1
Valid prediction for GlimmerHMM_glimmerT_51117-T1
Valid prediction for Augustus_model.g34204.t1
Valid prediction for GlimmerHMM_glimmerT_51127-T1
Valid prediction for Augustus_model.g34193.t1
Valid prediction for GlimmerHMM_glimmerT_51121-T1
Valid prediction for snap_scaffold_23-snap.1064-T1
Valid prediction for snap_scaffold_23-snap.1095-T1
Valid prediction for snap_scaffold_23-snap.1071-T1
Valid prediction for GlimmerHMM_glimmerT_51104-T1
Valid prediction for snap_scaffold_23-snap.1074-T1
Sorry, intron length (3) is less than minimum required (10)

-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_23-snap.1077-T1
Valid prediction for GlimmerHMM_glimmerT_51100-T1
Couldn't classify 196531, 196682
Couldn't classify 198358, 198403
Sorry, prediction pasa_asmbl_30961.p1 fails validation.
(AGA)	 CC	196531-196682	GT	AGG
(GTC)	 AG	197017-197175	GT	AGG
(GGC)	 AG	198358-198403	TC	TCT
-recovered pasa_asmbl_30961.p1, internal, 197017, 197175
Valid prediction for snap_scaffold_23-snap.1062-T1
Valid prediction for snap_scaffold_23-snap.1087-T1
Valid prediction for snap_scaffold_23-snap.1065-T1
Valid prediction for GlimmerHMM_glimmerT_51112-T1
Valid prediction for snap_scaffold_23-snap.1096-T1
Valid prediction for Augustus_model.g34203.t1
Valid prediction for GlimmerHMM_glimmerT_51115-T1
Valid prediction for snap_scaffold_23-snap.1068-T1
Valid prediction for GlimmerHMM_glimmerT_51102-T1
Valid prediction for snap_scaffold_23-snap.1089-T1
Valid prediction for snap_scaffold_23-snap.1081-T1
Valid prediction for snap_scaffold_23-snap.1070-T1
Valid prediction for GlimmerHMM_glimmerT_51106-T1
Valid prediction for GlimmerHMM_glimmerT_51101-T1
Couldn't classify 160961, 161181
Couldn't classify 161306, 161399
Sorry, prediction pasa_asmbl_30963.p2 fails validation.
(AGC)	 TC	160961-161181	GT	CGG
(GTT)	 AG	161306-161399	GT	AGG
-recovered pasa_asmbl_30963.p2, internal, 161306, 161399
Valid prediction for snap_scaffold_23-snap.1078-T1
Couldn't classify 148798, 148928
Sorry, prediction pasa_asmbl_30964.p1 fails validation.
(ATG)	 GA	145542-145741	GT	AGG
(GTA)	 AG	147271-147434	GT	AGG
(AGG)	 AG	148798-148928	GG	TGG
-recovered pasa_asmbl_30964.p1, initial, 145542, 145741
-recovered pasa_asmbl_30964.p1, internal, 147271, 147434
Valid prediction for GlimmerHMM_glimmerT_51118-T1
Valid prediction for GlimmerHMM_glimmerT_51119-T1
Valid prediction for snap_scaffold_23-snap.1085-T1
Valid prediction for snap_scaffold_23-snap.1093-T1
Valid prediction for Augustus_model.g34194.t1
Valid prediction for snap_scaffold_23-snap.1091-T1
Valid prediction for Augustus_model.g34191.t1
Valid prediction for GlimmerHMM_glimmerT_51107-T1
Valid prediction for GlimmerHMM_glimmerT_51122-T1
Valid prediction for Augustus_model.g34199.t1
Couldn't classify 152207, 152284
Couldn't classify 155676, 155774
Sorry, prediction pasa_asmbl_31198.p1 fails validation.
(GAG)	 CA	152207-152284	GT	TGG
(CCG)	 AG	153772-153997	GT	GGG
(AAT)	 AG	154478-154575	GT	AGG
(CCT)	 AG	155676-155774	AC	CCA
-recovered pasa_asmbl_31198.p1, internal, 153772, 153997
-recovered pasa_asmbl_31198.p1, internal, 154478, 154575
Valid prediction for GlimmerHMM_glimmerT_51124-T1
Valid prediction for GlimmerHMM_glimmerT_51123-T1
Valid prediction for snap_scaffold_23-snap.1067-T1
Valid prediction for snap_scaffold_23-snap.1084-T1
Valid prediction for snap_scaffold_23-snap.1086-T1
Valid prediction for snap_scaffold_23-snap.1098-T1
Valid prediction for snap_scaffold_23-snap.1104-T1
Valid prediction for GlimmerHMM_glimmerT_51114-T1
Valid prediction for Augustus_model.g34196.t1
Valid prediction for Augustus_model.g34192.t1
Valid prediction for snap_scaffold_23-snap.1063-T1
Valid prediction for snap_scaffold_23-snap.1072-T1
Valid prediction for GlimmerHMM_glimmerT_51109-T1
Valid prediction for snap_scaffold_23-snap.1075-T1
Valid prediction for snap_scaffold_23-snap.1082-T1
Valid prediction for snap_scaffold_23-snap.1099-T1
Valid prediction for GlimmerHMM_glimmerT_51099-T1
Valid prediction for snap_scaffold_23-snap.1079-T1
Valid prediction for GlimmerHMM_glimmerT_51111-T1
Valid prediction for Augustus_model.g34197.t1
Valid prediction for snap_scaffold_23-snap.1090-T1
Valid prediction for Augustus_model.g34195.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16347, rend_intergenic: 14419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23673, rend_intergenic: 18856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32936, rend_intergenic: 27088  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40194, rend_intergenic: 39185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56026, rend_intergenic: 48472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73855, rend_intergenic: 61201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82607, rend_intergenic: 80360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91162, rend_intergenic: 86899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92653, rend_intergenic: 91957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180490, rend_intergenic: 177260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191961, rend_intergenic: 185154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200643, rend_intergenic: 194731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207895, rend_intergenic: 201916  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 239897
-exon list size: 373


building trellis

0.3    
0.5    
0.8    
1.1    
1.3    
1.6    
1.9    
2.1    
2.4    
2.7    
2.9    
3.2    
3.5    
3.7    
4.0    
4.3    
4.5    
4.8    
5.1    
5.3    
5.6    
5.9    
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6.7    
6.9    
7.2    
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8.0    
8.3    
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9.1    
9.3    
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9.9    
10.1    
10.4    
10.7    
10.9    
11.2    
11.5    
11.7    
12.0    
12.3    
12.5    
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13.1    
13.3    
13.6    
13.9    
14.1    
14.4    
14.7    
14.9    
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15.5    
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16.0    
16.3    
16.5    
16.8    
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17.3    
17.6    
17.9    
18.1    
18.4    
18.7    
18.9    
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20.8    
21.1    
21.3    
21.6    
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22.7    
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25.9    
26.1    
26.4    
26.7    
26.9    
27.2    
27.5    
27.7    
28.0    
28.3    
28.5    
28.8    
29.1    
29.3    
29.6    
29.9    
30.1    
30.4    
30.7    
30.9    
31.2    
31.5    
31.7    
32.0    
32.3    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.7    
34.9    
35.2    
35.5    
35.7    
36.0    
36.3    
36.5    
36.8    
37.1    
37.3    
37.6    
37.9    
38.1    
38.4    
38.7    
38.9    
39.2    
39.5    
39.7    
40.0    
40.3    
40.5    
40.8    
41.1    
41.3    
41.6    
41.9    
42.1    
42.4    
42.7    
42.9    
43.2    
43.5    
43.7    
44.0    
44.3    
44.5    
44.8    
45.1    
45.3    
45.6    
45.9    
46.1    
46.4    
46.7    
46.9    
47.2    
47.5    
47.7    
48.0    
48.3    
48.5    
48.8    
49.1    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
50.9    
51.2    
51.5    
51.7    
52.0    
52.3    
52.5    
52.8    
53.1    
53.3    
53.6    
53.9    
54.1    
54.4    
54.7    
54.9    
55.2    
55.5    
55.7    
56.0    
56.3    
56.5    
56.8    
57.1    
57.3    
57.6    
57.9    
58.1    
58.4    
58.7    
58.9    
59.2    
59.5    
59.7    
60.0    
60.3    
60.5    
60.8    
61.1    
61.3    
61.6    
61.9    
62.1    
62.4    
62.7    
62.9    
63.2    
63.5    
63.7    
64.0    
64.3    
64.5    
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65.1    
65.3    
65.6    
65.9    
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66.4    
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67.2    
67.5    
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68.0    
68.3    
68.5    
68.8    
69.1    
69.3    
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73.6    
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74.1    
74.4    
74.7    
74.9    
75.2    
75.5    
75.7    
76.0    
76.3    
76.5    
76.8    
77.1    
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77.6    
77.9    
78.1    
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78.7    
78.9    
79.2    
79.5    
79.7    
80.0    
80.3    
80.5    
80.8    
81.1    
81.3    
81.6    
81.9    
82.1    
82.4    
82.7    
82.9    
83.2    
83.5    
83.7    
84.0    
84.3    
84.5    
84.8    
85.1    
85.3    
85.6    
85.9    
86.1    
86.4    
86.7    
86.9    
87.2    
87.5    
87.7    
88.0    
88.3    
88.5    
88.8    
89.1    
89.3    
89.6    
89.9    
90.1    
90.4    
90.7    
90.9    
91.2    
91.5    
91.7    
92.0    
92.3    
92.5    
92.8    
93.1    
93.3    
93.6    
93.9    
94.1    
94.4    
94.7    
94.9    
95.2    
95.5    
95.7    
96.0    
96.3    
96.5    
96.8    
97.1    
97.3    
97.6    
97.9    
98.1    
98.4    
98.7    
98.9    
99.2    
99.5    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 16347, rend_intergenic: 14419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23673, rend_intergenic: 18856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32936, rend_intergenic: 27088  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40194, rend_intergenic: 39185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56026, rend_intergenic: 48472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73855, rend_intergenic: 61201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82607, rend_intergenic: 80360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91162, rend_intergenic: 86899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92653, rend_intergenic: 91957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180490, rend_intergenic: 177260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191961, rend_intergenic: 185154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200643, rend_intergenic: 194731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207895, rend_intergenic: 201916  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support