-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_7091227-7255252

-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_17-snap.1424-T1
Valid prediction for snap_scaffold_17-snap.1418-T1
Valid prediction for CodingQuarry_transcript_22025-T1
Couldn't classify 73919, 73970
Sorry, prediction pasa_asmbl_19445.p1 fails validation.
(ATG)	 CC	71948-72038	GT	GGG
(TGA)	 AG	72620-72748	GT	CAG
(AAA)	 AG	72908-72948	GT	AGG
(AAA)	 AG	73091-73166	GT	GTG
(CCT)	 AG	73381-73448	GT	GGG
(GGA)	 AG	73617-73696	GT	AGG
(GTC)	 AG	73919-73970	CT	CTC
-recovered pasa_asmbl_19445.p1, initial, 71948, 72038
-recovered pasa_asmbl_19445.p1, internal, 72620, 72748
-recovered pasa_asmbl_19445.p1, internal, 72908, 72948
-recovered pasa_asmbl_19445.p1, internal, 73091, 73166
-recovered pasa_asmbl_19445.p1, internal, 73381, 73448
-recovered pasa_asmbl_19445.p1, internal, 73617, 73696
Valid prediction for snap_scaffold_17-snap.1406-T1
Valid prediction for GlimmerHMM_glimmerT_40525-T1
Valid prediction for snap_scaffold_17-snap.1419-T1
Valid prediction for Augustus_model.g27014.t1
Valid prediction for GlimmerHMM_glimmerT_40509-T1
Valid prediction for snap_scaffold_17-snap.1397-T1
Valid prediction for snap_scaffold_17-snap.1426-T1
Valid prediction for GlimmerHMM_glimmerT_40508-T1
Valid prediction for snap_scaffold_17-snap.1398-T1
Valid prediction for GlimmerHMM_glimmerT_40523-T1
Valid prediction for GlimmerHMM_glimmerT_40520-T1
Valid prediction for snap_scaffold_17-snap.1400-T1
Valid prediction for GlimmerHMM_glimmerT_40517-T1
Valid prediction for GlimmerHMM_glimmerT_40528-T1
Valid prediction for snap_scaffold_17-snap.1413-T1
Valid prediction for snap_scaffold_17-snap.1414-T1
Valid prediction for snap_scaffold_17-snap.1416-T1
Valid prediction for CodingQuarry_transcript_22029-T1
Valid prediction for Augustus_model.g27008.t1
Valid prediction for GlimmerHMM_glimmerT_40516-T1
Valid prediction for Augustus_model.g27003.t1
Valid prediction for Augustus_model.g27010.t1
Valid prediction for pasa_asmbl_18897.p1
Valid prediction for CodingQuarry_transcript_22028-T1
Valid prediction for snap_scaffold_17-snap.1408-T1
Valid prediction for GlimmerHMM_glimmerT_40507-T1
Valid prediction for pasa_asmbl_18895.p1
Couldn't classify 56785, 56918
Sorry, prediction pasa_asmbl_18896.p1 fails validation.
(ATG)	 AC	55579-55617	GT	GGG
(GTG)	 AG	55860-56041	GT	AGG
(GTA)	 AG	56518-56654	GT	TGG
(TTT)	 AG	56785-56918	GG	GAG
-recovered pasa_asmbl_18896.p1, initial, 55579, 55617
-recovered pasa_asmbl_18896.p1, internal, 55860, 56041
-recovered pasa_asmbl_18896.p1, internal, 56518, 56654
Valid prediction for GlimmerHMM_glimmerT_40522-T1
Valid prediction for snap_scaffold_17-snap.1429-T1
Valid prediction for GlimmerHMM_glimmerT_40513-T1
Valid prediction for Augustus_model.g27012.t1
Valid prediction for HiQ_model.g27002.t1
Valid prediction for GlimmerHMM_glimmerT_40519-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_40512-T1
Valid prediction for GlimmerHMM_glimmerT_40524-T1
Valid prediction for snap_scaffold_17-snap.1420-T1
Valid prediction for GlimmerHMM_glimmerT_40526-T1
Valid prediction for snap_scaffold_17-snap.1411-T1
Valid prediction for CodingQuarry_transcript_22026-T1
Valid prediction for HiQ_model.g27011.t1
Valid prediction for snap_scaffold_17-snap.1409-T1
Valid prediction for Augustus_model.g27006.t1
Valid prediction for GlimmerHMM_glimmerT_40527-T1
Valid prediction for GlimmerHMM_glimmerT_40506-T1
Valid prediction for snap_scaffold_17-snap.1401-T1
Valid prediction for Augustus_model.g27007.t1
Valid prediction for snap_scaffold_17-snap.1403-T1
Valid prediction for snap_scaffold_17-snap.1404-T1
Valid prediction for CodingQuarry_transcript_22027-T1
Couldn't classify 125516, 126010
Sorry, prediction pasa_asmbl_18051.p1 fails validation.
(ATG)	 GA	125516-126010	GG	GAG
Valid prediction for GlimmerHMM_glimmerT_40514-T1
Valid prediction for snap_scaffold_17-snap.1428-T1
Valid prediction for snap_scaffold_17-snap.1425-T1
Valid prediction for snap_scaffold_17-snap.1430-T1
Valid prediction for pasa_asmbl_18053.p1
Valid prediction for snap_scaffold_17-snap.1415-T1
Valid prediction for snap_scaffold_17-snap.1427-T1
Valid prediction for snap_scaffold_17-snap.1412-T1
Valid prediction for snap_scaffold_17-snap.1423-T1
Valid prediction for snap_scaffold_17-snap.1410-T1
Valid prediction for pasa_asmbl_18050.p1
Valid prediction for snap_scaffold_17-snap.1422-T1
Valid prediction for snap_scaffold_17-snap.1421-T1
Valid prediction for snap_scaffold_17-snap.1399-T1
Valid prediction for Augustus_model.g27005.t1
Valid prediction for Augustus_model.g27004.t1
Valid prediction for snap_scaffold_17-snap.1402-T1
Valid prediction for Augustus_model.g27009.t1
Valid prediction for GlimmerHMM_glimmerT_40521-T1
Valid prediction for GlimmerHMM_glimmerT_40511-T1
Valid prediction for Augustus_model.g27013.t1
Valid prediction for GlimmerHMM_glimmerT_40510-T1
Valid prediction for snap_scaffold_17-snap.1407-T1
Valid prediction for snap_scaffold_17-snap.1417-T1
Valid prediction for GlimmerHMM_glimmerT_40518-T1
Valid prediction for snap_scaffold_17-snap.1405-T1
Valid prediction for GlimmerHMM_glimmerT_40515-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 23253, rend_intergenic: 18593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29094, rend_intergenic: 25257  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49509, rend_intergenic: 42244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89152, rend_intergenic: 83643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93469, rend_intergenic: 89359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113117, rend_intergenic: 93684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124912, rend_intergenic: 114242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134994, rend_intergenic: 125158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138194, rend_intergenic: 135134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144984, rend_intergenic: 138647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155515, rend_intergenic: 149219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164026
-exon list size: 302


building trellis

0.3    
0.7    
1.0    
1.3    
1.6    
2.0    
2.3    
2.6    
3.0    
3.3    
3.6    
3.9    
4.3    
4.6    
4.9    
5.3    
5.6    
5.9    
6.2    
6.6    
6.9    
7.2    
7.6    
7.9    
8.2    
8.6    
8.9    
9.2    
9.5    
9.9    
10.2    
10.5    
10.9    
11.2    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.8    
14.1    
14.5    
14.8    
15.1    
15.5    
15.8    
16.1    
16.4    
16.8    
17.1    
17.4    
17.8    
18.1    
18.4    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.4    
23.7    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.3    
26.6    
27.0    
27.3    
27.6    
28.0    
28.3    
28.6    
28.9    
29.3    
29.6    
29.9    
30.3    
30.6    
30.9    
31.2    
31.6    
31.9    
32.2    
32.6    
32.9    
33.2    
33.6    
33.9    
34.2    
34.5    
34.9    
35.2    
35.5    
35.9    
36.2    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.4    
41.8    
42.1    
42.4    
42.8    
43.1    
43.4    
43.8    
44.1    
44.4    
44.7    
45.1    
45.4    
45.7    
46.1    
46.4    
46.7    
47.0    
47.4    
47.7    
48.0    
48.4    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.6    
52.0    
52.3    
52.6    
53.0    
53.3    
53.6    
53.9    
54.3    
54.6    
54.9    
55.3    
55.6    
55.9    
56.2    
56.6    
56.9    
57.2    
57.6    
57.9    
58.2    
58.6    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.8    
64.1    
64.5    
64.8    
65.1    
65.5    
65.8    
66.1    
66.4    
66.8    
67.1    
67.4    
67.8    
68.1    
68.4    
68.8    
69.1    
69.4    
69.7    
70.1    
70.4    
70.7    
71.1    
71.4    
71.7    
72.0    
72.4    
72.7    
73.0    
73.4    
73.7    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.3    
76.6    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.6    
81.9    
82.2    
82.6    
82.9    
83.2    
83.6    
83.9    
84.2    
84.5    
84.9    
85.2    
85.5    
85.9    
86.2    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.8    
89.1    
89.5    
89.8    
90.1    
90.5    
90.8    
91.1    
91.4    
91.8    
92.1    
92.4    
92.8    
93.1    
93.4    
93.8    
94.1    
94.4    
94.7    
95.1    
95.4    
95.7    
96.1    
96.4    
96.7    
97.0    
97.4    
97.7    
98.0    
98.4    
98.7    
99.0    
99.3    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 23253, rend_intergenic: 18593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29094, rend_intergenic: 25257  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49509, rend_intergenic: 42244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89152, rend_intergenic: 83643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93469, rend_intergenic: 89359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113117, rend_intergenic: 93684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124912, rend_intergenic: 114242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134994, rend_intergenic: 125158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138194, rend_intergenic: 135134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144984, rend_intergenic: 138647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155515, rend_intergenic: 149219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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

-building DP trellis

-building trellis in range 1 - 10273
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support