-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1/scaffold_1_7934235-8161302

-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_1157-T1
Valid prediction for GlimmerHMM_glimmerT_1149-T1
Valid prediction for GeneMark_model.1483_t
Valid prediction for GeneMark_model.1486_t
Valid prediction for GeneMark_model.1488_t
Valid prediction for GeneMark_model.1507_t
Valid prediction for GlimmerHMM_glimmerT_1165-T1
Valid prediction for GlimmerHMM_glimmerT_1158-T1
Valid prediction for snap_scaffold_1-snap.1440-T1
Valid prediction for GeneMark_model.1491_t
Valid prediction for GeneMark_model.1481_t
Valid prediction for snap_scaffold_1-snap.1457-T1
Valid prediction for GeneMark_model.1501_t
Valid prediction for snap_scaffold_1-snap.1435-T1
Valid prediction for snap_scaffold_1-snap.1442-T1
Valid prediction for Augustus_model.g851.t1
Valid prediction for snap_scaffold_1-snap.1449-T1
Valid prediction for GlimmerHMM_glimmerT_1162-T1
Valid prediction for GeneMark_model.1477_t
Valid prediction for GeneMark_model.1503_t
Valid prediction for Augustus_model.g846.t1
Valid prediction for Augustus_model.g848.t1
Valid prediction for Augustus_model.g852.t1
Valid prediction for GlimmerHMM_glimmerT_1172-T1
Valid prediction for snap_scaffold_1-snap.1453-T1
Sorry, intron length (7) is less than minimum required (10)
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_1-snap.1446-T1
Valid prediction for snap_scaffold_1-snap.1436-T1
Valid prediction for Augustus_model.g843.t1
Valid prediction for GlimmerHMM_glimmerT_1148-T1
Valid prediction for Augustus_model.g837.t1
Valid prediction for Augustus_model.g840.t1
Valid prediction for snap_scaffold_1-snap.1448-T1
Valid prediction for GeneMark_model.1469_t
Valid prediction for snap_scaffold_1-snap.1447-T1
Valid prediction for Augustus_model.g839.t1
Valid prediction for Augustus_model.g841.t1
Valid prediction for snap_scaffold_1-snap.1438-T1
Valid prediction for snap_scaffold_1-snap.1445-T1
Valid prediction for GlimmerHMM_glimmerT_1156-T1
Valid prediction for GlimmerHMM_glimmerT_1151-T1
Valid prediction for GeneMark_model.1480_t
Valid prediction for GeneMark_model.1497_t
Valid prediction for Augustus_model.g847.t1
Couldn't classify 215521, 215664
Sorry, prediction pasa_asmbl_1925.p1 fails validation.
(GTA)	 AG	215521-215664	GT	AGG
(GTG)	 AG	216009-216128	GT	GGG
(ACG)	 AG	217313-217551	GT	AGG
(GTT)	 AG	217749-217874	GT	AGG
(CTT)	 AG	218161-218245	GG	GAG
-recovered pasa_asmbl_1925.p1, terminal, 218161, 218245
-recovered pasa_asmbl_1925.p1, internal, 215521, 215664
-recovered pasa_asmbl_1925.p1, internal, 216009, 216128
-recovered pasa_asmbl_1925.p1, internal, 217313, 217551
-recovered pasa_asmbl_1925.p1, internal, 217749, 217874
Valid prediction for snap_scaffold_1-snap.1433-T1
Valid prediction for GeneMark_model.1493_t
Valid prediction for GeneMark_model.1465_t
Valid prediction for GlimmerHMM_glimmerT_1167-T1
Valid prediction for GeneMark_model.1495_t
Valid prediction for snap_scaffold_1-snap.1460-T1
Valid prediction for GlimmerHMM_glimmerT_1146-T1
Valid prediction for snap_scaffold_1-snap.1439-T1
Valid prediction for snap_scaffold_1-snap.1451-T1
Valid prediction for GeneMark_model.1467_t
Valid prediction for Augustus_model.g845.t1
Valid prediction for GlimmerHMM_glimmerT_1160-T1
Valid prediction for snap_scaffold_1-snap.1444-T1
Valid prediction for GeneMark_model.1505_t
Valid prediction for GlimmerHMM_glimmerT_1171-T1
Valid prediction for GeneMark_model.1473_t
Valid prediction for snap_scaffold_1-snap.1432-T1
Valid prediction for GeneMark_model.1506_t
Valid prediction for GeneMark_model.1471_t
Valid prediction for GlimmerHMM_glimmerT_1166-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_1-snap.1441-T1
Valid prediction for GlimmerHMM_glimmerT_1161-T1
Valid prediction for GeneMark_model.1502_t
Valid prediction for GeneMark_model.1470_t
Valid prediction for GeneMark_model.1494_t
Valid prediction for GeneMark_model.1478_t
Valid prediction for GlimmerHMM_glimmerT_1170-T1
Valid prediction for snap_scaffold_1-snap.1452-T1
Valid prediction for GeneMark_model.1484_t
Valid prediction for Augustus_model.g842.t1
Valid prediction for GeneMark_model.1492_t
Valid prediction for GlimmerHMM_glimmerT_1145-T1
Valid prediction for Augustus_model.g849.t1
Valid prediction for GeneMark_model.1475_t
Valid prediction for GlimmerHMM_glimmerT_1169-T1
Valid prediction for GeneMark_model.1489_t
Valid prediction for GeneMark_model.1476_t
Valid prediction for GlimmerHMM_glimmerT_1164-T1
Valid prediction for GeneMark_model.1482_t
Valid prediction for snap_scaffold_1-snap.1456-T1
Valid prediction for GlimmerHMM_glimmerT_1147-T1
Valid prediction for snap_scaffold_1-snap.1443-T1
Valid prediction for Augustus_model.g844.t1
Valid prediction for GlimmerHMM_glimmerT_1155-T1
Valid prediction for GeneMark_model.1500_t
Valid prediction for snap_scaffold_1-snap.1455-T1
Valid prediction for snap_scaffold_1-snap.1458-T1
Valid prediction for GlimmerHMM_glimmerT_1152-T1
Valid prediction for GeneMark_model.1496_t
Valid prediction for GeneMark_model.1468_t
Valid prediction for GlimmerHMM_glimmerT_1150-T1
Valid prediction for snap_scaffold_1-snap.1454-T1
Valid prediction for GeneMark_model.1504_t
Valid prediction for GeneMark_model.1499_t
Valid prediction for snap_scaffold_1-snap.1437-T1
Valid prediction for GeneMark_model.1474_t
Valid prediction for GlimmerHMM_glimmerT_1163-T1
Valid prediction for GeneMark_model.1490_t
Valid prediction for snap_scaffold_1-snap.1434-T1
Valid prediction for snap_scaffold_1-snap.1450-T1
Valid prediction for GeneMark_model.1466_t
Valid prediction for GeneMark_model.1487_t
Valid prediction for GlimmerHMM_glimmerT_1168-T1
Valid prediction for GlimmerHMM_glimmerT_1159-T1
Valid prediction for snap_scaffold_1-snap.1459-T1
Valid prediction for GeneMark_model.1485_t
Valid prediction for GlimmerHMM_glimmerT_1153-T1
Valid prediction for GeneMark_model.1472_t
Valid prediction for Augustus_model.g838.t1
Valid prediction for GeneMark_model.1479_t
Valid prediction for GlimmerHMM_glimmerT_1154-T1
Valid prediction for Augustus_model.g850.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 26004, rend_intergenic: 24913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150065, rend_intergenic: 142621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187948, rend_intergenic: 182779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193202, rend_intergenic: 188609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197595, rend_intergenic: 197588  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202222, rend_intergenic: 201086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218245, rend_intergenic: 215978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222327, rend_intergenic: 219780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 227068
-exon list size: 452


building trellis

0.2    
0.4    
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0.9    
1.1    
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1.5    
1.8    
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2.6    
2.9    
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3.5    
3.7    
4.0    
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4.4    
4.6    
4.8    
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5.9    
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6.6    
6.8    
7.0    
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7.5    
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7.9    
8.1    
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8.6    
8.8    
9.0    
9.3    
9.5    
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10.8    
11.0    
11.2    
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11.7    
11.9    
12.1    
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12.6    
12.8    
13.0    
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13.9    
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14.8    
15.0    
15.2    
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15.6    
15.9    
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17.0    
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17.6    
17.8    
18.1    
18.3    
18.5    
18.7    
18.9    
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19.6    
19.8    
20.0    
20.3    
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20.7    
20.9    
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21.4    
21.6    
21.8    
22.0    
22.2    
22.5    
22.7    
22.9    
23.1    
23.3    
23.6    
23.8    
24.0    
24.2    
24.4    
24.7    
24.9    
25.1    
25.3    
25.6    
25.8    
26.0    
26.2    
26.4    
26.7    
26.9    
27.1    
27.3    
27.5    
27.8    
28.0    
28.2    
28.4    
28.6    
28.9    
29.1    
29.3    
29.5    
29.7    
30.0    
30.2    
30.4    
30.6    
30.8    
31.1    
31.3    
31.5    
31.7    
31.9    
32.2    
32.4    
32.6    
32.8    
33.0    
33.3    
33.5    
33.7    
33.9    
34.1    
34.4    
34.6    
34.8    
35.0    
35.2    
35.5    
35.7    
35.9    
36.1    
36.3    
36.6    
36.8    
37.0    
37.2    
37.4    
37.7    
37.9    
38.1    
38.3    
38.5    
38.8    
39.0    
39.2    
39.4    
39.6    
39.9    
40.1    
40.3    
40.5    
40.7    
41.0    
41.2    
41.4    
41.6    
41.9    
42.1    
42.3    
42.5    
42.7    
43.0    
43.2    
43.4    
43.6    
43.8    
44.1    
44.3    
44.5    
44.7    
44.9    
45.2    
45.4    
45.6    
45.8    
46.0    
46.3    
46.5    
46.7    
46.9    
47.1    
47.4    
47.6    
47.8    
48.0    
48.2    
48.5    
48.7    
48.9    
49.1    
49.3    
49.6    
49.8    
50.0    
50.2    
50.4    
50.7    
50.9    
51.1    
51.3    
51.5    
51.8    
52.0    
52.2    
52.4    
52.6    
52.9    
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53.5    
53.7    
54.0    
54.2    
54.4    
54.6    
54.8    
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55.7    
55.9    
56.2    
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56.6    
56.8    
57.0    
57.3    
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57.9    
58.1    
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58.6    
58.8    
59.0    
59.3    
59.5    
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59.9    
60.1    
60.4    
60.6    
60.8    
61.0    
61.2    
61.5    
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61.9    
62.1    
62.3    
62.6    
62.8    
63.0    
63.2    
63.4    
63.7    
63.9    
64.1    
64.3    
64.5    
64.8    
65.0    
65.2    
65.4    
65.6    
65.9    
66.1    
66.3    
66.5    
66.7    
67.0    
67.2    
67.4    
67.6    
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68.1    
68.3    
68.5    
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68.9    
69.2    
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69.8    
70.0    
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70.9    
71.1    
71.4    
71.6    
71.8    
72.0    
72.2    
72.5    
72.7    
72.9    
73.1    
73.3    
73.6    
73.8    
74.0    
74.2    
74.4    
74.7    
74.9    
75.1    
75.3    
75.6    
75.8    
76.0    
76.2    
76.4    
76.7    
76.9    
77.1    
77.3    
77.5    
77.8    
78.0    
78.2    
78.4    
78.6    
78.9    
79.1    
79.3    
79.5    
79.7    
80.0    
80.2    
80.4    
80.6    
80.8    
81.1    
81.3    
81.5    
81.7    
81.9    
82.2    
82.4    
82.6    
82.8    
83.0    
83.3    
83.5    
83.7    
83.9    
84.1    
84.4    
84.6    
84.8    
85.0    
85.2    
85.5    
85.7    
85.9    
86.1    
86.3    
86.6    
86.8    
87.0    
87.2    
87.4    
87.7    
87.9    
88.1    
88.3    
88.5    
88.8    
89.0    
89.2    
89.4    
89.6    
89.9    
90.1    
90.3    
90.5    
90.7    
91.0    
91.2    
91.4    
91.6    
91.9    
92.1    
92.3    
92.5    
92.7    
93.0    
93.2    
93.4    
93.6    
93.8    
94.1    
94.3    
94.5    
94.7    
94.9    
95.2    
95.4    
95.6    
95.8    
96.0    
96.3    
96.5    
96.7    
96.9    
97.1    
97.4    
97.6    
97.8    
98.0    
98.2    
98.5    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 26004, rend_intergenic: 24913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150065, rend_intergenic: 142621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187948, rend_intergenic: 182779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193202, rend_intergenic: 188609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197595, rend_intergenic: 197588  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202222, rend_intergenic: 201086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218245, rend_intergenic: 215978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222327, rend_intergenic: 219780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support