-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_6147819-6338283

-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 HiQ_model.g18035.t1
Valid prediction for snap_scaffold_11-snap.1486-T1
Valid prediction for snap_scaffold_11-snap.1479-T1
Valid prediction for snap_scaffold_11-snap.1484-T1
Valid prediction for snap_scaffold_11-snap.1467-T1
Valid prediction for CodingQuarry_transcript_8093-T1
Valid prediction for Augustus_model.g18021.t1
Valid prediction for Augustus_model.g18025.t1
Valid prediction for GlimmerHMM_glimmerT_27227-T1
Couldn't classify 102156, 102353
Sorry, prediction pasa_asmbl_5618.p1 fails validation.
(CTG)	 AG	102156-102353	GT	CGG
(CTC)	 AG	103135-103322	GT	AAG
(GGT)	 AG	103449-103574	GT	CTG
(AGT)	 AG	103767-104031	CA	AAC
-recovered pasa_asmbl_5618.p1, terminal, 103767, 104031
-recovered pasa_asmbl_5618.p1, internal, 102156, 102353
-recovered pasa_asmbl_5618.p1, internal, 103135, 103322
-recovered pasa_asmbl_5618.p1, internal, 103449, 103574
Valid prediction for Augustus_model.g18022.t1
Valid prediction for GlimmerHMM_glimmerT_27219-T1
Valid prediction for snap_scaffold_11-snap.1465-T1
Valid prediction for snap_scaffold_11-snap.1489-T1
Valid prediction for Augustus_model.g18014.t1
Valid prediction for snap_scaffold_11-snap.1482-T1
Valid prediction for snap_scaffold_11-snap.1493-T1
Valid prediction for snap_scaffold_11-snap.1475-T1
Valid prediction for GlimmerHMM_glimmerT_27243-T1
Valid prediction for GlimmerHMM_glimmerT_27248-T1
Valid prediction for GlimmerHMM_glimmerT_27220-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for pasa_asmbl_5626.p1
Valid prediction for GlimmerHMM_glimmerT_27247-T1
Valid prediction for GlimmerHMM_glimmerT_27244-T1
Valid prediction for Augustus_model.g18013.t1
Valid prediction for Augustus_model.g18020.t1
Valid prediction for snap_scaffold_11-snap.1483-T1
Valid prediction for snap_scaffold_11-snap.1474-T1
Valid prediction for snap_scaffold_11-snap.1477-T1
Valid prediction for snap_scaffold_11-snap.1473-T1
Valid prediction for snap_scaffold_11-snap.1464-T1
Valid prediction for GlimmerHMM_glimmerT_27238-T1
Valid prediction for GlimmerHMM_glimmerT_27221-T1
Valid prediction for pasa_asmbl_5617.p1
Valid prediction for snap_scaffold_11-snap.1481-T1
Valid prediction for GlimmerHMM_glimmerT_27237-T1
Valid prediction for GlimmerHMM_glimmerT_27240-T1
Valid prediction for Augustus_model.g18026.t1
Valid prediction for Augustus_model.g18032.t1
Valid prediction for CodingQuarry_transcript_8094-T1
Valid prediction for GlimmerHMM_glimmerT_27235-T1
Valid prediction for GlimmerHMM_glimmerT_27232-T1
Valid prediction for HiQ_model.g18023.t1
Valid prediction for snap_scaffold_11-snap.1476-T1
Valid prediction for HiQ_model.g18024.t1
Valid prediction for Augustus_model.g18016.t1
Valid prediction for GlimmerHMM_glimmerT_27230-T1
Valid prediction for GlimmerHMM_glimmerT_27231-T1
Valid prediction for GlimmerHMM_glimmerT_27234-T1
Valid prediction for GlimmerHMM_glimmerT_27236-T1
Valid prediction for GlimmerHMM_glimmerT_27223-T1
Valid prediction for GlimmerHMM_glimmerT_27222-T1
Valid prediction for Augustus_model.g18027.t1
Valid prediction for pasa_asmbl_5624.p1
Valid prediction for snap_scaffold_11-snap.1485-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 GlimmerHMM_glimmerT_27246-T1
Valid prediction for snap_scaffold_11-snap.1495-T1
Valid prediction for snap_scaffold_11-snap.1471-T1
Valid prediction for Augustus_model.g18017.t1
Valid prediction for GlimmerHMM_glimmerT_27226-T1
Valid prediction for snap_scaffold_11-snap.1480-T1
Valid prediction for snap_scaffold_11-snap.1488-T1
Valid prediction for Augustus_model.g18033.t1
Valid prediction for snap_scaffold_11-snap.1466-T1
Valid prediction for snap_scaffold_11-snap.1490-T1
Valid prediction for GlimmerHMM_glimmerT_27249-T1
Valid prediction for snap_scaffold_11-snap.1472-T1
Valid prediction for GlimmerHMM_glimmerT_27229-T1
Valid prediction for Augustus_model.g18030.t1
Valid prediction for Augustus_model.g18019.t1
Valid prediction for snap_scaffold_11-snap.1469-T1
Valid prediction for GlimmerHMM_glimmerT_27224-T1
Valid prediction for Augustus_model.g18034.t1
Valid prediction for Augustus_model.g18028.t1
Valid prediction for GlimmerHMM_glimmerT_27225-T1
Valid prediction for GlimmerHMM_glimmerT_27245-T1
Valid prediction for Augustus_model.g18029.t1
Couldn't classify 29224, 29351
Sorry, prediction pasa_asmbl_6703.p1 fails validation.
(CTT)	 AT	29224-29351	GT	GGG
(GTG)	 AG	29452-29628	GT	AGG
(GTT)	 AG	29745-30303	TG	GAT
-recovered pasa_asmbl_6703.p1, terminal, 29745, 30303
-recovered pasa_asmbl_6703.p1, internal, 29452, 29628
Valid prediction for snap_scaffold_11-snap.1478-T1
Valid prediction for snap_scaffold_11-snap.1487-T1
Valid prediction for Augustus_model.g18018.t1
Valid prediction for snap_scaffold_11-snap.1496-T1
Valid prediction for Augustus_model.g18015.t1
Valid prediction for GlimmerHMM_glimmerT_27242-T1
Valid prediction for snap_scaffold_11-snap.1470-T1
Valid prediction for GlimmerHMM_glimmerT_27241-T1
Valid prediction for Augustus_model.g18031.t1
Valid prediction for snap_scaffold_11-snap.1491-T1
Valid prediction for GlimmerHMM_glimmerT_27239-T1
Valid prediction for Augustus_model.g18036.t1
Valid prediction for GlimmerHMM_glimmerT_27233-T1
Valid prediction for snap_scaffold_11-snap.1492-T1
Valid prediction for snap_scaffold_11-snap.1494-T1
Valid prediction for snap_scaffold_11-snap.1468-T1
Valid prediction for GlimmerHMM_glimmerT_27228-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 170388, rend_intergenic: 167754  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 190465
-exon list size: 306


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.3    
2.6    
2.9    
3.2    
3.6    
3.9    
4.2    
4.5    
4.9    
5.2    
5.5    
5.8    
6.2    
6.5    
6.8    
7.1    
7.5    
7.8    
8.1    
8.4    
8.8    
9.1    
9.4    
9.7    
10.1    
10.4    
10.7    
11.0    
11.4    
11.7    
12.0    
12.3    
12.7    
13.0    
13.3    
13.6    
14.0    
14.3    
14.6    
14.9    
15.3    
15.6    
15.9    
16.2    
16.6    
16.9    
17.2    
17.5    
17.9    
18.2    
18.5    
18.8    
19.2    
19.5    
19.8    
20.1    
20.5    
20.8    
21.1    
21.4    
21.8    
22.1    
22.4    
22.7    
23.1    
23.4    
23.7    
24.0    
24.4    
24.7    
25.0    
25.3    
25.6    
26.0    
26.3    
26.6    
26.9    
27.3    
27.6    
27.9    
28.2    
28.6    
28.9    
29.2    
29.5    
29.9    
30.2    
30.5    
30.8    
31.2    
31.5    
31.8    
32.1    
32.5    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.7    
35.1    
35.4    
35.7    
36.0    
36.4    
36.7    
37.0    
37.3    
37.7    
38.0    
38.3    
38.6    
39.0    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.2    
41.6    
41.9    
42.2    
42.5    
42.9    
43.2    
43.5    
43.8    
44.2    
44.5    
44.8    
45.1    
45.5    
45.8    
46.1    
46.4    
46.8    
47.1    
47.4    
47.7    
48.1    
48.4    
48.7    
49.0    
49.4    
49.7    
50.0    
50.3    
50.6    
51.0    
51.3    
51.6    
51.9    
52.3    
52.6    
52.9    
53.2    
53.6    
53.9    
54.2    
54.5    
54.9    
55.2    
55.5    
55.8    
56.2    
56.5    
56.8    
57.1    
57.5    
57.8    
58.1    
58.4    
58.8    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.0    
61.4    
61.7    
62.0    
62.3    
62.7    
63.0    
63.3    
63.6    
64.0    
64.3    
64.6    
64.9    
65.3    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.5    
67.9    
68.2    
68.5    
68.8    
69.2    
69.5    
69.8    
70.1    
70.5    
70.8    
71.1    
71.4    
71.8    
72.1    
72.4    
72.7    
73.1    
73.4    
73.7    
74.0    
74.4    
74.7    
75.0    
75.3    
75.6    
76.0    
76.3    
76.6    
76.9    
77.3    
77.6    
77.9    
78.2    
78.6    
78.9    
79.2    
79.5    
79.9    
80.2    
80.5    
80.8    
81.2    
81.5    
81.8    
82.1    
82.5    
82.8    
83.1    
83.4    
83.8    
84.1    
84.4    
84.7    
85.1    
85.4    
85.7    
86.0    
86.4    
86.7    
87.0    
87.3    
87.7    
88.0    
88.3    
88.6    
89.0    
89.3    
89.6    
89.9    
90.3    
90.6    
90.9    
91.2    
91.6    
91.9    
92.2    
92.5    
92.9    
93.2    
93.5    
93.8    
94.2    
94.5    
94.8    
95.1    
95.5    
95.8    
96.1    
96.4    
96.8    
97.1    
97.4    
97.7    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 170388, rend_intergenic: 167754  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 32 predictions persist after filtering for low support