-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_395951-570799

-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 GeneMark_model.58126_t
Valid prediction for Augustus_model.g22790.t1
Valid prediction for snap_scaffold_14-snap.92-T1
Valid prediction for GlimmerHMM_glimmerT_33917-T1
Valid prediction for CodingQuarry_transcript_15480-T1
Valid prediction for snap_scaffold_14-snap.89-T1
Valid prediction for GlimmerHMM_glimmerT_33895-T1
Valid prediction for GlimmerHMM_glimmerT_33901-T1
Valid prediction for GlimmerHMM_glimmerT_33893-T1
Valid prediction for snap_scaffold_14-snap.95-T1
Valid prediction for GeneMark_model.58135_t
Valid prediction for GlimmerHMM_glimmerT_33911-T1
Valid prediction for CodingQuarry_transcript_15483-T1
Valid prediction for Augustus_model.g22784.t1
Valid prediction for snap_scaffold_14-snap.87-T1
Valid prediction for Augustus_model.g22788.t1
Valid prediction for CodingQuarry_transcript_15482-T1
Couldn't classify 164609, 164856
Couldn't classify 169056, 169232
Sorry, prediction pasa_asmbl_11734.p1 fails validation.
(TGC)	 AG	164609-164856	GT	CGG
(TCT)	 AG	165621-165734	GT	AAG
(AAA)	 AG	166732-167143	GT	CTG
(CAT)	 AG	169056-169232	AA	GTA
-recovered pasa_asmbl_11734.p1, internal, 164609, 164856
-recovered pasa_asmbl_11734.p1, internal, 165621, 165734
-recovered pasa_asmbl_11734.p1, internal, 166732, 167143
Valid prediction for GeneMark_model.58143_t
Valid prediction for snap_scaffold_14-snap.100-T1
Valid prediction for snap_scaffold_14-snap.103-T1
Valid prediction for GeneMark_model.58134_t
Valid prediction for GeneMark_model.58132_t
Valid prediction for snap_scaffold_14-snap.99-T1
Valid prediction for GeneMark_model.58129_t
Valid prediction for snap_scaffold_14-snap.90-T1
Valid prediction for snap_scaffold_14-snap.98-T1
Valid prediction for snap_scaffold_14-snap.86-T1
Valid prediction for GlimmerHMM_glimmerT_33921-T1
Valid prediction for snap_scaffold_14-snap.80-T1
Valid prediction for GlimmerHMM_glimmerT_33915-T1
Valid prediction for snap_scaffold_14-snap.109-T1
Valid prediction for snap_scaffold_14-snap.93-T1
Valid prediction for GlimmerHMM_glimmerT_33903-T1
Valid prediction for Augustus_model.g22773.t1
Valid prediction for snap_scaffold_14-snap.84-T1
Valid prediction for Augustus_model.g22776.t1
Valid prediction for GlimmerHMM_glimmerT_33905-T1
Valid prediction for GlimmerHMM_glimmerT_33902-T1
Valid prediction for CodingQuarry_transcript_15481-T1
Valid prediction for GeneMark_model.58133_t
Valid prediction for snap_scaffold_14-snap.102-T1
Valid prediction for GlimmerHMM_glimmerT_33906-T1
Valid prediction for GeneMark_model.58141_t
Valid prediction for GlimmerHMM_glimmerT_33900-T1
Couldn't classify 87914, 88351
Sorry, prediction pasa_asmbl_11732.p1 fails validation.
(GCC)	 GC	87914-88351	GG	AGG
Couldn't classify 7035, 7153
Sorry, prediction pasa_asmbl_11727.p1 fails validation.
(TCC)	 GT	7035-7153	GT	TGG
(GGA)	 AG	7533-7617	GT	AGG
(GTC)	 AG	7713-7833	GT	AGG
(AAA)	 AG	7947-8054	GT	GGG
(ATA)	 AG	8216-8304	GT	AGG
(GCC)	 AG	8594-8708	GT	ACG
(GTT)	 AG	9255-9259	AA	GAA
-recovered pasa_asmbl_11727.p1, terminal, 9255, 9259
-recovered pasa_asmbl_11727.p1, internal, 7533, 7617
-recovered pasa_asmbl_11727.p1, internal, 7713, 7833
-recovered pasa_asmbl_11727.p1, internal, 7947, 8054
-recovered pasa_asmbl_11727.p1, internal, 8216, 8304
-recovered pasa_asmbl_11727.p1, internal, 8594, 8708
Valid prediction for GlimmerHMM_glimmerT_33920-T1
Valid prediction for snap_scaffold_14-snap.77-T1
Valid prediction for Augustus_model.g22777.t1
Valid prediction for Augustus_model.g22775.t1
Valid prediction for GlimmerHMM_glimmerT_33891-T1
Valid prediction for snap_scaffold_14-snap.94-T1
Valid prediction for snap_scaffold_14-snap.108-T1
Valid prediction for snap_scaffold_14-snap.104-T1
Valid prediction for GeneMark_model.58142_t
Valid prediction for GlimmerHMM_glimmerT_33918-T1
Valid prediction for Augustus_model.g22770.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 Augustus_model.g22782.t1
Valid prediction for GlimmerHMM_glimmerT_33892-T1
Valid prediction for GeneMark_model.58139_t
Valid prediction for snap_scaffold_14-snap.83-T1
Valid prediction for GlimmerHMM_glimmerT_33907-T1
Valid prediction for snap_scaffold_14-snap.88-T1
Valid prediction for GlimmerHMM_glimmerT_33919-T1
Valid prediction for GlimmerHMM_glimmerT_33898-T1
Valid prediction for snap_scaffold_14-snap.96-T1
Valid prediction for snap_scaffold_14-snap.82-T1
Valid prediction for GlimmerHMM_glimmerT_33912-T1
Valid prediction for GlimmerHMM_glimmerT_33909-T1
Valid prediction for Augustus_model.g22787.t1
Valid prediction for snap_scaffold_14-snap.85-T1
Valid prediction for GeneMark_model.58127_t
Valid prediction for snap_scaffold_14-snap.105-T1
Valid prediction for Augustus_model.g22786.t1
Valid prediction for Augustus_model.g22774.t1
Valid prediction for GeneMark_model.58140_t
Valid prediction for snap_scaffold_14-snap.78-T1
Valid prediction for GeneMark_model.58128_t
Valid prediction for Augustus_model.g22778.t1
Valid prediction for Augustus_model.g22783.t1
Valid prediction for GeneMark_model.58138_t
Valid prediction for GeneMark_model.58130_t
Valid prediction for Augustus_model.g22789.t1
Valid prediction for Augustus_model.g22781.t1
Valid prediction for snap_scaffold_14-snap.91-T1
Valid prediction for GlimmerHMM_glimmerT_33897-T1
Valid prediction for GeneMark_model.58131_t
Valid prediction for GlimmerHMM_glimmerT_33914-T1
Valid prediction for Augustus_model.g22771.t1
Valid prediction for Augustus_model.g22772.t1
Valid prediction for snap_scaffold_14-snap.106-T1
Valid prediction for GlimmerHMM_glimmerT_33904-T1
Valid prediction for Augustus_model.g22785.t1
Valid prediction for snap_scaffold_14-snap.81-T1
Valid prediction for GlimmerHMM_glimmerT_33916-T1
Valid prediction for GlimmerHMM_glimmerT_33899-T1
Valid prediction for snap_scaffold_14-snap.97-T1
Valid prediction for snap_scaffold_14-snap.107-T1
Valid prediction for GlimmerHMM_glimmerT_33894-T1
Valid prediction for snap_scaffold_14-snap.79-T1
Valid prediction for GlimmerHMM_glimmerT_33896-T1
Valid prediction for Augustus_model.g22779.t1
Valid prediction for GlimmerHMM_glimmerT_33908-T1
Valid prediction for snap_scaffold_14-snap.101-T1
Valid prediction for GlimmerHMM_glimmerT_33913-T1
Valid prediction for Augustus_model.g22791.t1
Valid prediction for GlimmerHMM_glimmerT_33910-T1
Valid prediction for Augustus_model.g22780.t1
Couldn't classify 154434, 154438
Couldn't classify 157485, 157525
Sorry, prediction pasa_asmbl_12815.p1 fails validation.
(TTC)	 TC	154434-154438	GT	TCG
(ACG)	 AG	154602-154641	GT	GGG
(TCT)	 AG	154742-154879	GT	AGG
(AAG)	 AG	156547-156861	GT	AAG
(GAA)	 AG	157011-157072	GT	AGG
(TCC)	 AG	157259-157365	GT	TGG
(ATG)	 AG	157485-157525	AC	AGA
-recovered pasa_asmbl_12815.p1, internal, 154602, 154641
-recovered pasa_asmbl_12815.p1, internal, 154742, 154879
-recovered pasa_asmbl_12815.p1, internal, 156547, 156861
-recovered pasa_asmbl_12815.p1, internal, 157011, 157072
-recovered pasa_asmbl_12815.p1, internal, 157259, 157365

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 80785, rend_intergenic: 78849  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 174849
-exon list size: 350


building trellis

0.3    
0.6    
0.9    
1.1    
1.4    
1.7    
2.0    
2.3    
2.6    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.6    
13.9    
14.2    
14.5    
14.8    
15.1    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.0    
17.3    
17.6    
17.9    
18.2    
18.5    
18.8    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.8    
28.1    
28.4    
28.7    
29.0    
29.3    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.0    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.4    
97.7    
98.0    
98.3    
98.6    
98.9    
99.1    
99.4    
99.7    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 80785, rend_intergenic: 78849  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