-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_5606776-5771530

-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 Augustus_model.g38012.t1
Valid prediction for GlimmerHMM_glimmerT_57373-T1
Valid prediction for snap_scaffold_27-snap.1338-T1
Valid prediction for snap_scaffold_27-snap.1321-T1
Valid prediction for snap_scaffold_27-snap.1357-T1
Valid prediction for snap_scaffold_27-snap.1340-T1
Valid prediction for snap_scaffold_27-snap.1352-T1
Valid prediction for GlimmerHMM_glimmerT_57364-T1
Valid prediction for snap_scaffold_27-snap.1326-T1
Valid prediction for snap_scaffold_27-snap.1328-T1
Valid prediction for GlimmerHMM_glimmerT_57360-T1
Valid prediction for Augustus_model.g38019.t1
Couldn't classify 57293, 57395
Sorry, prediction pasa_asmbl_36352.p1 fails validation.
(CCC)	 CC	57293-57395	GT	TGG
(AGC)	 AG	57623-57767	GT	AGG
(GTA)	 AG	57917-58026	GT	TGG
(GCC)	 AG	58119-58261	GT	ACG
(CCC)	 AG	58593-58769	AC	AAA
-recovered pasa_asmbl_36352.p1, terminal, 58593, 58769
-recovered pasa_asmbl_36352.p1, internal, 57623, 57767
-recovered pasa_asmbl_36352.p1, internal, 57917, 58026
-recovered pasa_asmbl_36352.p1, internal, 58119, 58261
Valid prediction for snap_scaffold_27-snap.1345-T1
Valid prediction for CodingQuarry_transcript_41898-T1
Valid prediction for snap_scaffold_27-snap.1329-T1
Valid prediction for GlimmerHMM_glimmerT_57375-T1
Valid prediction for snap_scaffold_27-snap.1343-T1
Valid prediction for snap_scaffold_27-snap.1347-T1
Valid prediction for GlimmerHMM_glimmerT_57379-T1
Valid prediction for GlimmerHMM_glimmerT_57374-T1
Valid prediction for GlimmerHMM_glimmerT_57370-T1
Valid prediction for Augustus_model.g38017.t1
Couldn't classify 78711, 78747
Sorry, prediction pasa_asmbl_36358.p1 fails validation.
(GGA)	 CT	78711-78747	GT	CTG
(CTG)	 AG	79328-79502	GT	AGG
(CAA)	 AG	79605-79770	GT	AAG
-recovered pasa_asmbl_36358.p1, terminal, 79605, 79770
-recovered pasa_asmbl_36358.p1, internal, 79328, 79502
-recovered pasa_asmbl_36358.p1, internal, 79605, 79770
Valid prediction for GlimmerHMM_glimmerT_57359-T1
Valid prediction for GlimmerHMM_glimmerT_57380-T1
Valid prediction for Augustus_model.g38018.t1
Valid prediction for Augustus_model.g38011.t1
Valid prediction for snap_scaffold_27-snap.1324-T1
Valid prediction for GlimmerHMM_glimmerT_57365-T1
Valid prediction for snap_scaffold_27-snap.1323-T1
Valid prediction for GlimmerHMM_glimmerT_57367-T1
Couldn't classify 35249, 35650
Sorry, prediction pasa_asmbl_36348.p1 fails validation.
(ATG)	 AA	35249-35650	GG	ATG
Valid prediction for GlimmerHMM_glimmerT_57361-T1
Valid prediction for snap_scaffold_27-snap.1327-T1
Valid prediction for GlimmerHMM_glimmerT_57377-T1
Valid prediction for snap_scaffold_27-snap.1332-T1
Valid prediction for snap_scaffold_27-snap.1355-T1
Valid prediction for snap_scaffold_27-snap.1351-T1
Valid prediction for snap_scaffold_27-snap.1336-T1
Valid prediction for pasa_asmbl_36359.p1
Valid prediction for snap_scaffold_27-snap.1358-T1
Valid prediction for GlimmerHMM_glimmerT_57382-T1
Valid prediction for GlimmerHMM_glimmerT_57362-T1
Valid prediction for Augustus_model.g38013.t1
Couldn't classify 47075, 47227
Couldn't classify 49865, 49923
Sorry, prediction pasa_asmbl_36349.p2 fails validation.
(ACT)	 AG	47075-47227	GT	AGG
(GCC)	 AG	48183-48333	GT	AGG
(ATA)	 AG	49865-49923	TG	GCT
-recovered pasa_asmbl_36349.p2, internal, 47075, 47227
-recovered pasa_asmbl_36349.p2, internal, 48183, 48333
Valid prediction for snap_scaffold_27-snap.1349-T1
Valid prediction for HiQ_model.g38015.t1
Valid prediction for snap_scaffold_27-snap.1337-T1
Valid prediction for snap_scaffold_27-snap.1342-T1
Valid prediction for snap_scaffold_27-snap.1330-T1
Couldn't classify 47075, 47155
Couldn't classify 56996, 57022
Sorry, prediction pasa_asmbl_36350.p1 fails validation.
(ACT)	 AG	47075-47155	GT	CCG
(GCC)	 AG	48183-48333	GT	AGG
(GAA)	 AG	50111-50245	GT	AGG
(ACT)	 AG	50515-50667	GT	AGG
(GTC)	 AG	52132-52294	GT	ATG
(TGA)	 AG	52574-52718	GT	AGG
(GCC)	 AG	52847-53021	GT	AGG
(GGT)	 AG	53289-53461	GT	AGG
(ACC)	 AG	53804-54226	GT	AGG
(CAA)	 AG	55602-55725	GT	GAG
(TTC)	 AG	55859-56064	GT	AGG
(ACC)	 AG	56996-57022	AG	ACA
-recovered pasa_asmbl_36350.p1, internal, 47075, 47155
-recovered pasa_asmbl_36350.p1, internal, 48183, 48333
-recovered pasa_asmbl_36350.p1, internal, 50111, 50245
-recovered pasa_asmbl_36350.p1, internal, 50515, 50667
-recovered pasa_asmbl_36350.p1, internal, 52132, 52294
-recovered pasa_asmbl_36350.p1, internal, 52574, 52718
-recovered pasa_asmbl_36350.p1, internal, 52847, 53021
-recovered pasa_asmbl_36350.p1, internal, 53289, 53461
-recovered pasa_asmbl_36350.p1, internal, 53804, 54226
-recovered pasa_asmbl_36350.p1, internal, 55602, 55725
-recovered pasa_asmbl_36350.p1, internal, 55859, 56064

-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_27-snap.1335-T1
Valid prediction for snap_scaffold_27-snap.1348-T1
Valid prediction for pasa_asmbl_37013.p1
Valid prediction for Augustus_model.g38010.t1
Valid prediction for GlimmerHMM_glimmerT_57378-T1
Valid prediction for GlimmerHMM_glimmerT_57381-T1
Valid prediction for HiQ_model.g38014.t1
Valid prediction for snap_scaffold_27-snap.1356-T1
Valid prediction for GlimmerHMM_glimmerT_57369-T1
Valid prediction for GlimmerHMM_glimmerT_57368-T1
Valid prediction for Augustus_model.g38016.t1
Valid prediction for snap_scaffold_27-snap.1333-T1
Valid prediction for snap_scaffold_27-snap.1353-T1
Valid prediction for snap_scaffold_27-snap.1341-T1
Valid prediction for GlimmerHMM_glimmerT_57376-T1
Valid prediction for GlimmerHMM_glimmerT_57372-T1
Valid prediction for snap_scaffold_27-snap.1322-T1
Valid prediction for GlimmerHMM_glimmerT_57366-T1
Valid prediction for snap_scaffold_27-snap.1334-T1
Valid prediction for snap_scaffold_27-snap.1339-T1
Valid prediction for snap_scaffold_27-snap.1350-T1
Valid prediction for snap_scaffold_27-snap.1325-T1
Valid prediction for snap_scaffold_27-snap.1331-T1
Valid prediction for snap_scaffold_27-snap.1354-T1
Valid prediction for GlimmerHMM_glimmerT_57371-T1
Valid prediction for snap_scaffold_27-snap.1346-T1
Valid prediction for snap_scaffold_27-snap.1344-T1
Valid prediction for GlimmerHMM_glimmerT_57363-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9568, rend_intergenic: 4579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21991, rend_intergenic: 9608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33360, rend_intergenic: 23708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42857, rend_intergenic: 38815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58769, rend_intergenic: 43239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69387, rend_intergenic: 63419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79770, rend_intergenic: 76389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86333, rend_intergenic: 80885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97862, rend_intergenic: 90322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104277, rend_intergenic: 102681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110720, rend_intergenic: 109182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116337, rend_intergenic: 112991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131683, rend_intergenic: 116461  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136861, rend_intergenic: 132134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147899, rend_intergenic: 139975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164755
-exon list size: 323


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.5    
5.8    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
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    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.0    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.8    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
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    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
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    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.2    
74.5    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
80.0    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.2    
94.5    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 9568, rend_intergenic: 4579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21991, rend_intergenic: 9608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33360, rend_intergenic: 23708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42857, rend_intergenic: 38815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58769, rend_intergenic: 43239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69387, rend_intergenic: 63419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79770, rend_intergenic: 76389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86333, rend_intergenic: 80885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97862, rend_intergenic: 90322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104277, rend_intergenic: 102681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110720, rend_intergenic: 109182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116337, rend_intergenic: 112991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131683, rend_intergenic: 116461  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136861, rend_intergenic: 132134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147899, rend_intergenic: 139975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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