-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_1928727-2120101

-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_10-snap.402-T1
Valid prediction for GlimmerHMM_glimmerT_24208-T1
Valid prediction for snap_scaffold_10-snap.444-T1
Valid prediction for snap_scaffold_10-snap.421-T1
Valid prediction for snap_scaffold_10-snap.442-T1
Valid prediction for snap_scaffold_10-snap.410-T1
Couldn't classify 198, 283
Couldn't classify 5295, 5384
Sorry, prediction pasa_asmbl_2967.p1 fails validation.
(AAA)	 TG	198-283	GT	AGG
(GTA)	 AG	386-434	GT	AGG
(TAT)	 AG	588-737	GT	AGG
(AAC)	 AG	3705-3881	GT	AGG
(GTG)	 AG	4207-4290	GT	AGG
(GAC)	 AG	4951-5037	GT	TGG
(ATG)	 AG	5295-5384	AC	TGA
-recovered pasa_asmbl_2967.p1, internal, 386, 434
-recovered pasa_asmbl_2967.p1, internal, 588, 737
-recovered pasa_asmbl_2967.p1, internal, 3705, 3881
-recovered pasa_asmbl_2967.p1, internal, 4207, 4290
-recovered pasa_asmbl_2967.p1, internal, 4951, 5037
Valid prediction for GlimmerHMM_glimmerT_24187-T1
Valid prediction for snap_scaffold_10-snap.434-T1
Valid prediction for GlimmerHMM_glimmerT_24204-T1
Valid prediction for GlimmerHMM_glimmerT_24206-T1
Valid prediction for snap_scaffold_10-snap.407-T1
Valid prediction for snap_scaffold_10-snap.422-T1
Valid prediction for snap_scaffold_10-snap.413-T1
Valid prediction for snap_scaffold_10-snap.412-T1
Valid prediction for GlimmerHMM_glimmerT_24212-T1
Valid prediction for snap_scaffold_10-snap.419-T1
Valid prediction for snap_scaffold_10-snap.441-T1
Valid prediction for snap_scaffold_10-snap.425-T1
Valid prediction for snap_scaffold_10-snap.431-T1
Valid prediction for snap_scaffold_10-snap.428-T1
Valid prediction for snap_scaffold_10-snap.433-T1
Valid prediction for GlimmerHMM_glimmerT_24195-T1
Valid prediction for Augustus_model.g16133.t1
Valid prediction for snap_scaffold_10-snap.409-T1
Valid prediction for snap_scaffold_10-snap.427-T1
Valid prediction for snap_scaffold_10-snap.406-T1
Valid prediction for GlimmerHMM_glimmerT_24189-T1
Valid prediction for Augustus_model.g16123.t1
Valid prediction for Augustus_model.g16120.t1
Valid prediction for GlimmerHMM_glimmerT_24203-T1
Valid prediction for snap_scaffold_10-snap.416-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_10-snap.438-T1
Valid prediction for GlimmerHMM_glimmerT_24192-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_10-snap.445-T1
Valid prediction for GlimmerHMM_glimmerT_24194-T1
Valid prediction for snap_scaffold_10-snap.437-T1
Valid prediction for Augustus_model.g16124.t1
Valid prediction for Augustus_model.g16129.t1
Valid prediction for snap_scaffold_10-snap.414-T1
Valid prediction for snap_scaffold_10-snap.432-T1
Valid prediction for Augustus_model.g16125.t1
Couldn't classify 76050, 76086
Couldn't classify 78078, 78187
Sorry, prediction pasa_asmbl_4098.p1 fails validation.
(CTG)	 GG	76050-76086	GT	CGG
(ACC)	 AG	76604-76795	GT	CGG
(CCA)	 AG	78078-78187	GA	GGG
-recovered pasa_asmbl_4098.p1, internal, 76604, 76795
Valid prediction for GlimmerHMM_glimmerT_24188-T1
Valid prediction for Augustus_model.g16132.t1
Valid prediction for snap_scaffold_10-snap.429-T1
Valid prediction for Augustus_model.g16128.t1
Valid prediction for Augustus_model.g16126.t1
Valid prediction for snap_scaffold_10-snap.439-T1
Couldn't classify 62870, 62914
Couldn't classify 65226, 65353
Sorry, prediction pasa_asmbl_4103.p1 fails validation.
(AAC)	 CC	62870-62914	GT	AGG
(AGG)	 AG	63093-63236	GT	AGG
(CTG)	 AG	63397-63499	GT	TGG
(ACA)	 AG	63748-63950	GT	AGG
(GAG)	 AG	64138-64278	GT	AGG
(ACG)	 AG	64484-64583	GT	CGG
(ACG)	 AG	65226-65353	AG	CCA
-recovered pasa_asmbl_4103.p1, internal, 63093, 63236
-recovered pasa_asmbl_4103.p1, internal, 63397, 63499
-recovered pasa_asmbl_4103.p1, internal, 63748, 63950
-recovered pasa_asmbl_4103.p1, internal, 64138, 64278
-recovered pasa_asmbl_4103.p1, internal, 64484, 64583
Valid prediction for snap_scaffold_10-snap.435-T1
Valid prediction for Augustus_model.g16121.t1
Valid prediction for GlimmerHMM_glimmerT_24191-T1
Valid prediction for GlimmerHMM_glimmerT_24186-T1
Valid prediction for snap_scaffold_10-snap.423-T1
Couldn't classify 125136, 125228
Couldn't classify 132014, 132113
Sorry, prediction pasa_asmbl_4092.p1 fails validation.
(GGG)	 GT	125136-125228	GT	AGG
(AAC)	 AG	125831-125908	GT	AGG
(GAA)	 AG	126051-126256	GT	GAG
(GAT)	 AG	126518-126649	GT	AGG
(ACA)	 AG	126739-126862	GT	TGG
(GTG)	 AG	128183-128296	GT	AGG
(GTG)	 AG	128753-128819	GT	AGG
(CCC)	 AG	128915-129064	GT	CGG
(GTC)	 AG	131391-131454	GT	AGG
(TGT)	 AG	132014-132113	CG	AGC
-recovered pasa_asmbl_4092.p1, internal, 125831, 125908
-recovered pasa_asmbl_4092.p1, internal, 126051, 126256
-recovered pasa_asmbl_4092.p1, internal, 126518, 126649
-recovered pasa_asmbl_4092.p1, internal, 126739, 126862
-recovered pasa_asmbl_4092.p1, internal, 128183, 128296
-recovered pasa_asmbl_4092.p1, internal, 128753, 128819
-recovered pasa_asmbl_4092.p1, internal, 128915, 129064
-recovered pasa_asmbl_4092.p1, internal, 131391, 131454
Valid prediction for snap_scaffold_10-snap.408-T1
Valid prediction for Augustus_model.g16134.t1
Valid prediction for snap_scaffold_10-snap.430-T1
Valid prediction for GlimmerHMM_glimmerT_24196-T1
Valid prediction for GlimmerHMM_glimmerT_24193-T1
Valid prediction for HiQ_model.g16131.t1
Valid prediction for snap_scaffold_10-snap.404-T1
Couldn't classify 74973, 75022
Couldn't classify 75921, 75995
Sorry, prediction pasa_asmbl_4100.p1 fails validation.
(TAC)	 GG	74973-75022	GT	AGG
(CAG)	 AG	75114-75234	GT	GGG
(GAG)	 AG	75527-75700	GT	GGG
(GTG)	 AG	75921-75995	CA	GAC
-recovered pasa_asmbl_4100.p1, internal, 75114, 75234
-recovered pasa_asmbl_4100.p1, internal, 75527, 75700
Valid prediction for GlimmerHMM_glimmerT_24198-T1
Valid prediction for GlimmerHMM_glimmerT_24199-T1
Valid prediction for GlimmerHMM_glimmerT_24197-T1
Valid prediction for Augustus_model.g16136.t1
Valid prediction for pasa_asmbl_4091.p1
Valid prediction for GlimmerHMM_glimmerT_24210-T1
Valid prediction for GlimmerHMM_glimmerT_24205-T1
Valid prediction for snap_scaffold_10-snap.411-T1
Valid prediction for snap_scaffold_10-snap.418-T1
Valid prediction for GlimmerHMM_glimmerT_24213-T1
Valid prediction for GlimmerHMM_glimmerT_24200-T1
Valid prediction for Augustus_model.g16135.t1
Valid prediction for Augustus_model.g16127.t1
Valid prediction for snap_scaffold_10-snap.403-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_24201-T1
Valid prediction for Augustus_model.g16122.t1
Valid prediction for snap_scaffold_10-snap.405-T1
Valid prediction for snap_scaffold_10-snap.415-T1
Valid prediction for GlimmerHMM_glimmerT_24207-T1
Valid prediction for snap_scaffold_10-snap.436-T1
Valid prediction for snap_scaffold_10-snap.440-T1
Valid prediction for snap_scaffold_10-snap.426-T1
Valid prediction for Augustus_model.g16119.t1
Valid prediction for Augustus_model.g16137.t1
Valid prediction for GlimmerHMM_glimmerT_24190-T1
Valid prediction for snap_scaffold_10-snap.417-T1
Valid prediction for GlimmerHMM_glimmerT_24211-T1
Valid prediction for CodingQuarry_transcript_5291-T1
Couldn't classify 97464, 97539
Sorry, prediction pasa_asmbl_4096.p1 fails validation.
(GTG)	 CA	97464-97539	GT	CAG
(TCA)	 AG	97935-98001	GT	AGG
(GTT)	 AG	98255-98339	GT	TTG
(GTG)	 AG	98529-98608	GT	AAG
(GCA)	 AG	98939-99038	GT	CGG
(ACA)	 AG	99177-99248	AA	GAA
-recovered pasa_asmbl_4096.p1, terminal, 99177, 99248
-recovered pasa_asmbl_4096.p1, internal, 97935, 98001
-recovered pasa_asmbl_4096.p1, internal, 98255, 98339
-recovered pasa_asmbl_4096.p1, internal, 98529, 98608
-recovered pasa_asmbl_4096.p1, internal, 98939, 99038
Valid prediction for snap_scaffold_10-snap.443-T1
Valid prediction for CodingQuarry_transcript_5292-T1
Valid prediction for GlimmerHMM_glimmerT_24202-T1
Valid prediction for snap_scaffold_10-snap.424-T1
Valid prediction for GlimmerHMM_glimmerT_24209-T1
Valid prediction for Augustus_model.g16130.t1
Valid prediction for snap_scaffold_10-snap.420-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8428, rend_intergenic: 4953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25631, rend_intergenic: 16781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33397, rend_intergenic: 28168  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44368, rend_intergenic: 40332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70991, rend_intergenic: 62314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100319, rend_intergenic: 92128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113841, rend_intergenic: 112922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120705, rend_intergenic: 114260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133013, rend_intergenic: 126761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140853, rend_intergenic: 134727  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144379, rend_intergenic: 143290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152609, rend_intergenic: 148375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158145, rend_intergenic: 153160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169836, rend_intergenic: 168053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182804, rend_intergenic: 180891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189228, rend_intergenic: 184464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 191375
-exon list size: 458


building trellis

0.2    
0.4    
0.7    
0.9    
1.1    
1.3    
1.5    
1.7    
2.0    
2.2    
2.4    
2.6    
2.8    
3.0    
3.3    
3.5    
3.7    
3.9    
4.1    
4.3    
4.6    
4.8    
5.0    
5.2    
5.4    
5.7    
5.9    
6.1    
6.3    
6.5    
6.7    
7.0    
7.2    
7.4    
7.6    
7.8    
8.0    
8.3    
8.5    
8.7    
8.9    
9.1    
9.3    
9.6    
9.8    
10.0    
10.2    
10.4    
10.7    
10.9    
11.1    
11.3    
11.5    
11.7    
12.0    
12.2    
12.4    
12.6    
12.8    
13.0    
13.3    
13.5    
13.7    
13.9    
14.1    
14.3    
14.6    
14.8    
15.0    
15.2    
15.4    
15.7    
15.9    
16.1    
16.3    
16.5    
16.7    
17.0    
17.2    
17.4    
17.6    
17.8    
18.0    
18.3    
18.5    
18.7    
18.9    
19.1    
19.3    
19.6    
19.8    
20.0    
20.2    
20.4    
20.7    
20.9    
21.1    
21.3    
21.5    
21.7    
22.0    
22.2    
22.4    
22.6    
22.8    
23.0    
23.3    
23.5    
23.7    
23.9    
24.1    
24.3    
24.6    
24.8    
25.0    
25.2    
25.4    
25.7    
25.9    
26.1    
26.3    
26.5    
26.7    
27.0    
27.2    
27.4    
27.6    
27.8    
28.0    
28.3    
28.5    
28.7    
28.9    
29.1    
29.3    
29.6    
29.8    
30.0    
30.2    
30.4    
30.7    
30.9    
31.1    
31.3    
31.5    
31.7    
32.0    
32.2    
32.4    
32.6    
32.8    
33.0    
33.3    
33.5    
33.7    
33.9    
34.1    
34.3    
34.6    
34.8    
35.0    
35.2    
35.4    
35.7    
35.9    
36.1    
36.3    
36.5    
36.7    
37.0    
37.2    
37.4    
37.6    
37.8    
38.0    
38.3    
38.5    
38.7    
38.9    
39.1    
39.3    
39.6    
39.8    
40.0    
40.2    
40.4    
40.7    
40.9    
41.1    
41.3    
41.5    
41.7    
42.0    
42.2    
42.4    
42.6    
42.8    
43.0    
43.3    
43.5    
43.7    
43.9    
44.1    
44.3    
44.6    
44.8    
45.0    
45.2    
45.4    
45.7    
45.9    
46.1    
46.3    
46.5    
46.7    
47.0    
47.2    
47.4    
47.6    
47.8    
48.0    
48.3    
48.5    
48.7    
48.9    
49.1    
49.3    
49.6    
49.8    
50.0    
50.2    
50.4    
50.7    
50.9    
51.1    
51.3    
51.5    
51.7    
52.0    
52.2    
52.4    
52.6    
52.8    
53.0    
53.3    
53.5    
53.7    
53.9    
54.1    
54.3    
54.6    
54.8    
55.0    
55.2    
55.4    
55.7    
55.9    
56.1    
56.3    
56.5    
56.7    
57.0    
57.2    
57.4    
57.6    
57.8    
58.0    
58.3    
58.5    
58.7    
58.9    
59.1    
59.3    
59.6    
59.8    
60.0    
60.2    
60.4    
60.7    
60.9    
61.1    
61.3    
61.5    
61.7    
62.0    
62.2    
62.4    
62.6    
62.8    
63.0    
63.3    
63.5    
63.7    
63.9    
64.1    
64.3    
64.6    
64.8    
65.0    
65.2    
65.4    
65.7    
65.9    
66.1    
66.3    
66.5    
66.7    
67.0    
67.2    
67.4    
67.6    
67.8    
68.0    
68.3    
68.5    
68.7    
68.9    
69.1    
69.3    
69.6    
69.8    
70.0    
70.2    
70.4    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.6    
74.8    
75.0    
75.2    
75.4    
75.7    
75.9    
76.1    
76.3    
76.5    
76.7    
77.0    
77.2    
77.4    
77.6    
77.8    
78.0    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.6    
79.8    
80.0    
80.2    
80.4    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.3    
83.5    
83.7    
83.9    
84.1    
84.3    
84.6    
84.8    
85.0    
85.2    
85.4    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.3    
88.5    
88.7    
88.9    
89.1    
89.3    
89.6    
89.8    
90.0    
90.2    
90.4    
90.7    
90.9    
91.1    
91.3    
91.5    
91.7    
92.0    
92.2    
92.4    
92.6    
92.8    
93.0    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.6    
94.8    
95.0    
95.2    
95.4    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
97.0    
97.2    
97.4    
97.6    
97.8    
98.0    
98.3    
98.5    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 8428, rend_intergenic: 4953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25631, rend_intergenic: 16781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33397, rend_intergenic: 28168  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44368, rend_intergenic: 40332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70991, rend_intergenic: 62314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100319, rend_intergenic: 92128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113841, rend_intergenic: 112922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120705, rend_intergenic: 114260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133013, rend_intergenic: 126761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140853, rend_intergenic: 134727  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144379, rend_intergenic: 143290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152609, rend_intergenic: 148375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158145, rend_intergenic: 153160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169836, rend_intergenic: 168053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182804, rend_intergenic: 180891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189228, rend_intergenic: 184464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support