-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_2756283-2925965

-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_52203-T1
Valid prediction for GlimmerHMM_glimmerT_52197-T1
Valid prediction for GlimmerHMM_glimmerT_52198-T1
Couldn't classify 166350, 166483
Couldn't classify 167542, 167869
Sorry, prediction pasa_asmbl_32112.p1 fails validation.
(TTG)	 CC	166350-166483	GT	AGG
(GCT)	 AG	166686-166833	GT	TGG
(GTG)	 AG	166957-167164	GT	GGG
(GTT)	 AG	167265-167337	GT	AGG
(GTA)	 AG	167542-167869	GC	CGG
-recovered pasa_asmbl_32112.p1, internal, 166686, 166833
-recovered pasa_asmbl_32112.p1, internal, 166957, 167164
-recovered pasa_asmbl_32112.p1, internal, 167265, 167337
-recovered pasa_asmbl_32112.p1, internal, 167542, 167869
Valid prediction for snap_scaffold_24-snap.632-T1
Valid prediction for snap_scaffold_24-snap.650-T1
Couldn't classify 165537, 165610
Sorry, prediction pasa_asmbl_32111.p1 fails validation.
(ATG)	 AG	163737-163868	GT	AGG
(GAG)	 AG	164005-164193	GT	AGG
(ACC)	 AG	164443-164608	GT	TGG
(GAA)	 AG	165537-165610	GT	GGG
-recovered pasa_asmbl_32111.p1, initial, 163737, 163868
-recovered pasa_asmbl_32111.p1, internal, 163737, 163868
-recovered pasa_asmbl_32111.p1, internal, 164005, 164193
-recovered pasa_asmbl_32111.p1, internal, 164443, 164608
-recovered pasa_asmbl_32111.p1, internal, 165537, 165610
Valid prediction for GlimmerHMM_glimmerT_52195-T1
Valid prediction for snap_scaffold_24-snap.640-T1
Valid prediction for snap_scaffold_24-snap.656-T1
Valid prediction for snap_scaffold_24-snap.652-T1
Valid prediction for GlimmerHMM_glimmerT_52199-T1
Valid prediction for snap_scaffold_24-snap.659-T1
Valid prediction for Augustus_model.g34773.t1
Valid prediction for snap_scaffold_24-snap.653-T1
Valid prediction for snap_scaffold_24-snap.645-T1
Valid prediction for snap_scaffold_24-snap.642-T1
Valid prediction for GlimmerHMM_glimmerT_52202-T1
Valid prediction for Augustus_model.g34782.t1
Valid prediction for snap_scaffold_24-snap.657-T1
Valid prediction for snap_scaffold_24-snap.661-T1
Valid prediction for GlimmerHMM_glimmerT_52189-T1
Valid prediction for Augustus_model.g34781.t1
Valid prediction for GlimmerHMM_glimmerT_52201-T1
Valid prediction for GlimmerHMM_glimmerT_52190-T1
Valid prediction for snap_scaffold_24-snap.629-T1
Valid prediction for Augustus_model.g34783.t1
Valid prediction for GlimmerHMM_glimmerT_52205-T1
Valid prediction for GlimmerHMM_glimmerT_52204-T1
Valid prediction for GlimmerHMM_glimmerT_52188-T1
Valid prediction for Augustus_model.g34772.t1
Valid prediction for Augustus_model.g34780.t1
Valid prediction for snap_scaffold_24-snap.647-T1
Valid prediction for snap_scaffold_24-snap.635-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_24-snap.637-T1
Valid prediction for snap_scaffold_24-snap.654-T1
Couldn't classify 139714, 140138
Sorry, prediction pasa_asmbl_32802.p1 fails validation.
(ATG)	 TG	138505-138571	GT	GGG
(AAG)	 AG	138736-138776	GT	TTG
(GCA)	 AG	138886-138960	GT	AGG
(CAG)	 AG	139285-139468	GT	CGG
(GTA)	 AG	139714-140138	GG	GAG
-recovered pasa_asmbl_32802.p1, initial, 138505, 138571
-recovered pasa_asmbl_32802.p1, internal, 138736, 138776
-recovered pasa_asmbl_32802.p1, internal, 138886, 138960
-recovered pasa_asmbl_32802.p1, internal, 139285, 139468
Valid prediction for HiQ_model.g34779.t1
Valid prediction for snap_scaffold_24-snap.634-T1
Valid prediction for snap_scaffold_24-snap.631-T1
Valid prediction for GlimmerHMM_glimmerT_52196-T1
Valid prediction for snap_scaffold_24-snap.630-T1
Valid prediction for snap_scaffold_24-snap.639-T1
Valid prediction for snap_scaffold_24-snap.658-T1
Valid prediction for Augustus_model.g34774.t1
Valid prediction for snap_scaffold_24-snap.655-T1
Valid prediction for HiQ_model.g34775.t1
Valid prediction for snap_scaffold_24-snap.643-T1
Couldn't classify 32798, 33010
Couldn't classify 33462, 33608
Sorry, prediction pasa_asmbl_33262.p1 fails validation.
(CTC)	 GT	32798-33010	GT	ACG
(GAT)	 AG	33137-33283	GT	GTG
(GTG)	 AG	33462-33608	GT	AGG
-recovered pasa_asmbl_33262.p1, internal, 33137, 33283
-recovered pasa_asmbl_33262.p1, internal, 33462, 33608
Valid prediction for Augustus_model.g34776.t1
Valid prediction for Augustus_model.g34778.t1
Valid prediction for snap_scaffold_24-snap.633-T1
Valid prediction for GlimmerHMM_glimmerT_52192-T1
Valid prediction for snap_scaffold_24-snap.638-T1
Valid prediction for Augustus_model.g34777.t1
Valid prediction for GlimmerHMM_glimmerT_52191-T1
Valid prediction for GlimmerHMM_glimmerT_52200-T1
Valid prediction for snap_scaffold_24-snap.636-T1
Valid prediction for GlimmerHMM_glimmerT_52193-T1
Valid prediction for snap_scaffold_24-snap.644-T1
Valid prediction for snap_scaffold_24-snap.651-T1
Valid prediction for snap_scaffold_24-snap.660-T1
Valid prediction for GlimmerHMM_glimmerT_52194-T1
Valid prediction for snap_scaffold_24-snap.641-T1
Valid prediction for snap_scaffold_24-snap.649-T1
Valid prediction for snap_scaffold_24-snap.648-T1
Valid prediction for snap_scaffold_24-snap.646-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6338, rend_intergenic: 2537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21609, rend_intergenic: 20505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23156, rend_intergenic: 22465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49215, rend_intergenic: 42019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64069, rend_intergenic: 49854  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85886, rend_intergenic: 64156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107441, rend_intergenic: 89710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110123, rend_intergenic: 107551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129025, rend_intergenic: 110544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133966, rend_intergenic: 129293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134934, rend_intergenic: 134747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140996, rend_intergenic: 135991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147069, rend_intergenic: 142898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148980, rend_intergenic: 147403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157106, rend_intergenic: 152244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162143, rend_intergenic: 159761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 169683
-exon list size: 273


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.5    
2.9    
3.3    
3.6    
4.0    
4.4    
4.7    
5.1    
5.5    
5.8    
6.2    
6.5    
6.9    
7.3    
7.6    
8.0    
8.4    
8.7    
9.1    
9.5    
9.8    
10.2    
10.5    
10.9    
11.3    
11.6    
12.0    
12.4    
12.7    
13.1    
13.5    
13.8    
14.2    
14.5    
14.9    
15.3    
15.6    
16.0    
16.4    
16.7    
17.1    
17.5    
17.8    
18.2    
18.5    
18.9    
19.3    
19.6    
20.0    
20.4    
20.7    
21.1    
21.5    
21.8    
22.2    
22.5    
22.9    
23.3    
23.6    
24.0    
24.4    
24.7    
25.1    
25.5    
25.8    
26.2    
26.5    
26.9    
27.3    
27.6    
28.0    
28.4    
28.7    
29.1    
29.5    
29.8    
30.2    
30.5    
30.9    
31.3    
31.6    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.5    
34.9    
35.3    
35.6    
36.0    
36.4    
36.7    
37.1    
37.5    
37.8    
38.2    
38.5    
38.9    
39.3    
39.6    
40.0    
40.4    
40.7    
41.1    
41.5    
41.8    
42.2    
42.5    
42.9    
43.3    
43.6    
44.0    
44.4    
44.7    
45.1    
45.5    
45.8    
46.2    
46.5    
46.9    
47.3    
47.6    
48.0    
48.4    
48.7    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.3    
51.6    
52.0    
52.4    
52.7    
53.1    
53.5    
53.8    
54.2    
54.5    
54.9    
55.3    
55.6    
56.0    
56.4    
56.7    
57.1    
57.5    
57.8    
58.2    
58.5    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.5    
61.8    
62.2    
62.5    
62.9    
63.3    
63.6    
64.0    
64.4    
64.7    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.4    
68.7    
69.1    
69.5    
69.8    
70.2    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.7    
73.1    
73.5    
73.8    
74.2    
74.5    
74.9    
75.3    
75.6    
76.0    
76.4    
76.7    
77.1    
77.5    
77.8    
78.2    
78.5    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.5    
81.8    
82.2    
82.5    
82.9    
83.3    
83.6    
84.0    
84.4    
84.7    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.3    
87.6    
88.0    
88.4    
88.7    
89.1    
89.5    
89.8    
90.2    
90.5    
90.9    
91.3    
91.6    
92.0    
92.4    
92.7    
93.1    
93.5    
93.8    
94.2    
94.5    
94.9    
95.3    
95.6    
96.0    
96.4    
96.7    
97.1    
97.5    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 6338, rend_intergenic: 2537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21609, rend_intergenic: 20505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23156, rend_intergenic: 22465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49215, rend_intergenic: 42019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64069, rend_intergenic: 49854  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85886, rend_intergenic: 64156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107441, rend_intergenic: 89710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110123, rend_intergenic: 107551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129025, rend_intergenic: 110544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133966, rend_intergenic: 129293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134934, rend_intergenic: 134747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140996, rend_intergenic: 135991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147069, rend_intergenic: 142898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148980, rend_intergenic: 147403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157106, rend_intergenic: 152244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162143, rend_intergenic: 159761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support