-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_5582614-5724921

-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_18-snap.1199-T1
Valid prediction for GlimmerHMM_glimmerT_42378-T1
Valid prediction for CodingQuarry_transcript_23769-T1
Valid prediction for snap_scaffold_18-snap.1194-T1
Valid prediction for snap_scaffold_18-snap.1193-T1
Valid prediction for Augustus_model.g28236.t1
Valid prediction for GlimmerHMM_glimmerT_42367-T1
Valid prediction for Augustus_model.g28243.t1
Valid prediction for snap_scaffold_18-snap.1175-T1
Valid prediction for GlimmerHMM_glimmerT_42386-T1
Valid prediction for snap_scaffold_18-snap.1191-T1
Valid prediction for GlimmerHMM_glimmerT_42388-T1
Valid prediction for snap_scaffold_18-snap.1177-T1
Valid prediction for snap_scaffold_18-snap.1184-T1
Valid prediction for HiQ_model.g28225.t1
Valid prediction for GlimmerHMM_glimmerT_42379-T1
Valid prediction for GlimmerHMM_glimmerT_42370-T1
Valid prediction for snap_scaffold_18-snap.1189-T1
Valid prediction for HiQ_model.g28223.t1
Valid prediction for Augustus_model.g28241.t1
Valid prediction for GlimmerHMM_glimmerT_42384-T1
Valid prediction for snap_scaffold_18-snap.1181-T1
Valid prediction for GlimmerHMM_glimmerT_42375-T1
Valid prediction for Augustus_model.g28227.t1
Valid prediction for snap_scaffold_18-snap.1198-T1
Valid prediction for Augustus_model.g28239.t1
Valid prediction for snap_scaffold_18-snap.1201-T1
Couldn't classify 22104, 22139
Sorry, prediction pasa_asmbl_20594.p2 fails validation.
(CAG)	 GG	22104-22139	GT	CAG
(CTT)	 AG	22888-23067	GT	TGG
(GTG)	 AG	23277-23406	GT	CTG
(ACC)	 AG	23750-23859	GT	ACG
(GAC)	 AG	24236-24328	AG	AAA
-recovered pasa_asmbl_20594.p2, terminal, 24236, 24328
-recovered pasa_asmbl_20594.p2, internal, 22888, 23067
-recovered pasa_asmbl_20594.p2, internal, 23277, 23406
-recovered pasa_asmbl_20594.p2, internal, 23750, 23859
Valid prediction for GlimmerHMM_glimmerT_42369-T1
Valid prediction for snap_scaffold_18-snap.1178-T1
Valid prediction for Augustus_model.g28240.t1
Valid prediction for Augustus_model.g28226.t1
Valid prediction for GlimmerHMM_glimmerT_42377-T1
Valid prediction for snap_scaffold_18-snap.1180-T1
Valid prediction for snap_scaffold_18-snap.1173-T1
Valid prediction for GlimmerHMM_glimmerT_42362-T1
Valid prediction for snap_scaffold_18-snap.1196-T1
Valid prediction for GlimmerHMM_glimmerT_42371-T1
Valid prediction for GlimmerHMM_glimmerT_42365-T1
Valid prediction for pasa_asmbl_20590.p1
Valid prediction for snap_scaffold_18-snap.1176-T1
Valid prediction for snap_scaffold_18-snap.1190-T1
Valid prediction for Augustus_model.g28234.t1
Valid prediction for GlimmerHMM_glimmerT_42383-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_42382-T1
Valid prediction for Augustus_model.g28232.t1
Valid prediction for snap_scaffold_18-snap.1172-T1
Valid prediction for GlimmerHMM_glimmerT_42368-T1
Valid prediction for snap_scaffold_18-snap.1192-T1
Valid prediction for snap_scaffold_18-snap.1203-T1
Valid prediction for CodingQuarry_transcript_23767-T1
Valid prediction for snap_scaffold_18-snap.1186-T1
Valid prediction for Augustus_model.g28229.t1
Valid prediction for HiQ_model.g28222.t1
Valid prediction for Augustus_model.g28233.t1
Valid prediction for Augustus_model.g28224.t1
Couldn't classify 124935, 125100
Sorry, prediction pasa_asmbl_19869.p1 fails validation.
(ATG)	 CG	123511-123590	GT	AGG
(TGA)	 AG	123848-123904	GT	AGG
(ACA)	 AG	124024-124093	GT	AGG
(CTG)	 AG	124234-124452	GT	AGG
(GAG)	 AG	124646-124830	GT	AGG
(GTT)	 AG	124935-125100	CA	AGC
-recovered pasa_asmbl_19869.p1, initial, 123511, 123590
-recovered pasa_asmbl_19869.p1, internal, 123848, 123904
-recovered pasa_asmbl_19869.p1, internal, 124024, 124093
-recovered pasa_asmbl_19869.p1, internal, 124234, 124452
-recovered pasa_asmbl_19869.p1, internal, 124646, 124830
Valid prediction for snap_scaffold_18-snap.1195-T1
Valid prediction for snap_scaffold_18-snap.1183-T1
Valid prediction for GlimmerHMM_glimmerT_42380-T1
Valid prediction for GlimmerHMM_glimmerT_42366-T1
Valid prediction for GlimmerHMM_glimmerT_42363-T1
Valid prediction for Augustus_model.g28231.t1
Valid prediction for Augustus_model.g28230.t1
Valid prediction for snap_scaffold_18-snap.1204-T1
Valid prediction for Augustus_model.g28242.t1
Valid prediction for snap_scaffold_18-snap.1200-T1
Valid prediction for snap_scaffold_18-snap.1205-T1
Valid prediction for snap_scaffold_18-snap.1202-T1
Valid prediction for GlimmerHMM_glimmerT_42361-T1
Valid prediction for GlimmerHMM_glimmerT_42387-T1
Valid prediction for CodingQuarry_transcript_23768-T1
Valid prediction for GlimmerHMM_glimmerT_42381-T1
Valid prediction for snap_scaffold_18-snap.1182-T1
Valid prediction for snap_scaffold_18-snap.1188-T1
Valid prediction for GlimmerHMM_glimmerT_42385-T1
Valid prediction for CodingQuarry_transcript_23770-T1
Valid prediction for GlimmerHMM_glimmerT_42373-T1
Couldn't classify 129241, 129328
Sorry, prediction pasa_asmbl_19868.p1 fails validation.
(CTG)	 CC	129241-129328	GT	GGG
(GGG)	 AG	129509-129625	GT	GGG
(GAG)	 AG	129727-129842	GT	TGG
(ACG)	 AG	129965-130012	GT	GGG
(GGT)	 AG	130118-130189	GT	AGG
(GAA)	 AG	130303-130359	GT	AGG
(GCA)	 AG	130495-130521	AA	AAA
-recovered pasa_asmbl_19868.p1, terminal, 130495, 130521
-recovered pasa_asmbl_19868.p1, internal, 129509, 129625
-recovered pasa_asmbl_19868.p1, internal, 129727, 129842
-recovered pasa_asmbl_19868.p1, internal, 129965, 130012
-recovered pasa_asmbl_19868.p1, internal, 130118, 130189
-recovered pasa_asmbl_19868.p1, internal, 130303, 130359
Valid prediction for snap_scaffold_18-snap.1174-T1
Valid prediction for Augustus_model.g28228.t1
Valid prediction for Augustus_model.g28235.t1
Valid prediction for snap_scaffold_18-snap.1185-T1
Valid prediction for Augustus_model.g28238.t1
Valid prediction for snap_scaffold_18-snap.1179-T1
Valid prediction for snap_scaffold_18-snap.1197-T1
Valid prediction for GlimmerHMM_glimmerT_42364-T1
Valid prediction for GlimmerHMM_glimmerT_42372-T1
Valid prediction for GlimmerHMM_glimmerT_42374-T1
Valid prediction for GlimmerHMM_glimmerT_42376-T1
Valid prediction for Augustus_model.g28237.t1
Valid prediction for pasa_asmbl_19863.p1
Valid prediction for snap_scaffold_18-snap.1187-T1
Sorry, intron length (3) is less than minimum required (10)

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19508, rend_intergenic: 13914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116959, rend_intergenic: 115701  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 142308
-exon list size: 293


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.1    
3.4    
3.7    
4.1    
4.4    
4.7    
5.1    
5.4    
5.8    
6.1    
6.4    
6.8    
7.1    
7.5    
7.8    
8.1    
8.5    
8.8    
9.2    
9.5    
9.8    
10.2    
10.5    
10.8    
11.2    
11.5    
11.9    
12.2    
12.5    
12.9    
13.2    
13.6    
13.9    
14.2    
14.6    
14.9    
15.3    
15.6    
15.9    
16.3    
16.6    
16.9    
17.3    
17.6    
18.0    
18.3    
18.6    
19.0    
19.3    
19.7    
20.0    
20.3    
20.7    
21.0    
21.4    
21.7    
22.0    
22.4    
22.7    
23.1    
23.4    
23.7    
24.1    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.4    
26.8    
27.1    
27.5    
27.8    
28.1    
28.5    
28.8    
29.2    
29.5    
29.8    
30.2    
30.5    
30.8    
31.2    
31.5    
31.9    
32.2    
32.5    
32.9    
33.2    
33.6    
33.9    
34.2    
34.6    
34.9    
35.3    
35.6    
35.9    
36.3    
36.6    
36.9    
37.3    
37.6    
38.0    
38.3    
38.6    
39.0    
39.3    
39.7    
40.0    
40.3    
40.7    
41.0    
41.4    
41.7    
42.0    
42.4    
42.7    
43.1    
43.4    
43.7    
44.1    
44.4    
44.7    
45.1    
45.4    
45.8    
46.1    
46.4    
46.8    
47.1    
47.5    
47.8    
48.1    
48.5    
48.8    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.2    
51.5    
51.9    
52.2    
52.5    
52.9    
53.2    
53.6    
53.9    
54.2    
54.6    
54.9    
55.3    
55.6    
55.9    
56.3    
56.6    
56.9    
57.3    
57.6    
58.0    
58.3    
58.6    
59.0    
59.3    
59.7    
60.0    
60.3    
60.7    
61.0    
61.4    
61.7    
62.0    
62.4    
62.7    
63.1    
63.4    
63.7    
64.1    
64.4    
64.7    
65.1    
65.4    
65.8    
66.1    
66.4    
66.8    
67.1    
67.5    
67.8    
68.1    
68.5    
68.8    
69.2    
69.5    
69.8    
70.2    
70.5    
70.8    
71.2    
71.5    
71.9    
72.2    
72.5    
72.9    
73.2    
73.6    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
75.9    
76.3    
76.6    
76.9    
77.3    
77.6    
78.0    
78.3    
78.6    
79.0    
79.3    
79.7    
80.0    
80.3    
80.7    
81.0    
81.4    
81.7    
82.0    
82.4    
82.7    
83.1    
83.4    
83.7    
84.1    
84.4    
84.7    
85.1    
85.4    
85.8    
86.1    
86.4    
86.8    
87.1    
87.5    
87.8    
88.1    
88.5    
88.8    
89.2    
89.5    
89.8    
90.2    
90.5    
90.8    
91.2    
91.5    
91.9    
92.2    
92.5    
92.9    
93.2    
93.6    
93.9    
94.2    
94.6    
94.9    
95.3    
95.6    
95.9    
96.3    
96.6    
96.9    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 19508, rend_intergenic: 13914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116959, rend_intergenic: 115701  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support