-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_20/scaffold_20_9912467-10089399

-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_47845-T1
Valid prediction for GlimmerHMM_glimmerT_47840-T1
Valid prediction for HiQ_model.g31923.t1
Valid prediction for GlimmerHMM_glimmerT_47836-T1
Valid prediction for Augustus_model.g31929.t1
Valid prediction for CodingQuarry_transcript_30554-T1
Valid prediction for GlimmerHMM_glimmerT_47849-T1
Valid prediction for snap_scaffold_20-snap.2198-T1
Valid prediction for GlimmerHMM_glimmerT_47846-T1
Valid prediction for CodingQuarry_transcript_30559-T1
Valid prediction for snap_scaffold_20-snap.2191-T1
Valid prediction for GlimmerHMM_glimmerT_47851-T1
Valid prediction for GeneMark_model.83451_t
Valid prediction for GeneMark_model.83428_t
Valid prediction for snap_scaffold_20-snap.2196-T1
Valid prediction for snap_scaffold_20-snap.2185-T1
Valid prediction for GeneMark_model.83432_t
Valid prediction for snap_scaffold_20-snap.2201-T1
Valid prediction for GeneMark_model.83434_t
Valid prediction for Augustus_model.g31918.t1
Valid prediction for snap_scaffold_20-snap.2202-T1
Valid prediction for GeneMark_model.83453_t
Valid prediction for snap_scaffold_20-snap.2205-T1
Valid prediction for GeneMark_model.83442_t
Valid prediction for Augustus_model.g31924.t1
Valid prediction for CodingQuarry_transcript_30555-T1
Valid prediction for GlimmerHMM_glimmerT_47841-T1
Valid prediction for Augustus_model.g31925.t1
Valid prediction for CodingQuarry_transcript_30558-T1
Valid prediction for Augustus_model.g31915.t1
Valid prediction for GlimmerHMM_glimmerT_47848-T1
Couldn't classify 135739, 136096
Sorry, prediction pasa_asmbl_26076.p1 fails validation.
(AGG)	 CA	135739-136096	GT	AGG
(TTG)	 AG	136298-136425	GT	AAG
-recovered pasa_asmbl_26076.p1, terminal, 136298, 136425
-recovered pasa_asmbl_26076.p1, internal, 136298, 136425
Valid prediction for GeneMark_model.83437_t
Valid prediction for GeneMark_model.83435_t
Valid prediction for GeneMark_model.83446_t
Valid prediction for GeneMark_model.83443_t
Valid prediction for GeneMark_model.83441_t
Couldn't classify 36054, 36150
Sorry, prediction pasa_asmbl_26067.p1 fails validation.
(ATG)	 CC	30094-31776	GT	CGG
(GCG)	 AG	32236-32396	GT	AAG
(GGG)	 AG	32605-32731	GT	TTG
(TTG)	 AG	33004-33060	GT	TGG
(GGC)	 AG	33497-33619	GT	AGG
(CAG)	 AG	33954-34017	GT	TGG
(GAG)	 AG	35447-35570	GT	AGG
(AAA)	 AG	36054-36150	CA	TCC
-recovered pasa_asmbl_26067.p1, initial, 30094, 31776
-recovered pasa_asmbl_26067.p1, internal, 32236, 32396
-recovered pasa_asmbl_26067.p1, internal, 32605, 32731
-recovered pasa_asmbl_26067.p1, internal, 33004, 33060
-recovered pasa_asmbl_26067.p1, internal, 33497, 33619
-recovered pasa_asmbl_26067.p1, internal, 33954, 34017
-recovered pasa_asmbl_26067.p1, internal, 35447, 35570
Valid prediction for snap_scaffold_20-snap.2187-T1
Valid prediction for pasa_asmbl_26071.p1
Valid prediction for CodingQuarry_transcript_30561-T1
Valid prediction for GlimmerHMM_glimmerT_47847-T1
Valid prediction for GeneMark_model.83449_t
Valid prediction for GeneMark_model.83427_t
Valid prediction for CodingQuarry_transcript_30560-T1
Valid prediction for HiQ_model.g31928.t1
Valid prediction for snap_scaffold_20-snap.2186-T1
Valid prediction for HiQ_model.g31920.t1
Valid prediction for snap_scaffold_20-snap.2195-T1
Valid prediction for Augustus_model.g31916.t1
Valid prediction for GeneMark_model.83444_t
Valid prediction for GlimmerHMM_glimmerT_47854-T1
Valid prediction for snap_scaffold_20-snap.2190-T1
Valid prediction for GlimmerHMM_glimmerT_47853-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.g31913.t1
Valid prediction for snap_scaffold_20-snap.2189-T1
Valid prediction for Augustus_model.g31927.t1
Valid prediction for GlimmerHMM_glimmerT_47850-T1
Valid prediction for GeneMark_model.83429_t
Couldn't classify 101598, 101774
Sorry, prediction pasa_asmbl_26997.p1 fails validation.
(CTG)	 CC	101598-101774	GT	AGG
(CCC)	 AG	101916-102590	GG	GAG
-recovered pasa_asmbl_26997.p1, terminal, 101916, 102590
Valid prediction for snap_scaffold_20-snap.2199-T1
Valid prediction for GeneMark_model.83440_t
Valid prediction for snap_scaffold_20-snap.2203-T1
Valid prediction for GlimmerHMM_glimmerT_47838-T1
Valid prediction for snap_scaffold_20-snap.2188-T1
Valid prediction for GeneMark_model.83438_t
Valid prediction for GeneMark_model.83452_t
Valid prediction for GeneMark_model.83430_t
Valid prediction for HiQ_model.g31926.t1
Valid prediction for HiQ_model.g31919.t1
Valid prediction for GeneMark_model.83447_t
Valid prediction for GeneMark_model.83448_t
Valid prediction for snap_scaffold_20-snap.2192-T1
Valid prediction for snap_scaffold_20-snap.2204-T1
Valid prediction for GlimmerHMM_glimmerT_47833-T1
Valid prediction for snap_scaffold_20-snap.2194-T1
Valid prediction for GlimmerHMM_glimmerT_47852-T1
Valid prediction for GeneMark_model.83450_t
Valid prediction for GlimmerHMM_glimmerT_47855-T1
Couldn't classify 175285, 175319
Couldn't classify 175912, 176100
Sorry, prediction pasa_asmbl_27197.p2 fails validation.
(CAT)	 CT	175285-175319	GT	AAG
(GCT)	 AG	175629-175725	GT	AGG
(GCA)	 AG	175912-176100	TC	AGT
-recovered pasa_asmbl_27197.p2, internal, 175629, 175725
Valid prediction for Augustus_model.g31922.t1
Valid prediction for snap_scaffold_20-snap.2206-T1
Valid prediction for snap_scaffold_20-snap.2197-T1
Valid prediction for GeneMark_model.83439_t
Valid prediction for snap_scaffold_20-snap.2200-T1
Couldn't classify 171822, 172024
Sorry, prediction pasa_asmbl_26987.p1 fails validation.
(ATG)	 AC	171399-171543	GT	AGG
(GTG)	 AG	171822-172024	AA	CCA
-recovered pasa_asmbl_26987.p1, initial, 171399, 171543
Valid prediction for GlimmerHMM_glimmerT_47839-T1
Valid prediction for GeneMark_model.83436_t
Valid prediction for GlimmerHMM_glimmerT_47834-T1
Couldn't classify 95104, 95232
Couldn't classify 95937, 95986
Sorry, prediction pasa_asmbl_26998.p1 fails validation.
(TCG)	 AC	95104-95232	GT	AGG
(GTG)	 AG	95538-95706	GT	AGG
(GAT)	 AG	95937-95986	GA	ATG
-recovered pasa_asmbl_26998.p1, internal, 95538, 95706
Valid prediction for Augustus_model.g31917.t1
Valid prediction for GlimmerHMM_glimmerT_47842-T1
Valid prediction for snap_scaffold_20-snap.2193-T1
Valid prediction for GlimmerHMM_glimmerT_47843-T1
Valid prediction for GeneMark_model.83433_t
Valid prediction for GlimmerHMM_glimmerT_47835-T1
Valid prediction for CodingQuarry_transcript_30557-T1
Couldn't classify 32219, 32342
Sorry, prediction pasa_asmbl_27000.p1 fails validation.
(CTA)	 AC	32219-32342	GT	ATG
(TTG)	 AG	32543-32719	GT	AGG
(AAT)	 AG	33099-33158	GT	CTG
(TTG)	 AG	33690-33874	GT	CGG
(GTG)	 AG	33998-34045	CC	GAC
-recovered pasa_asmbl_27000.p1, terminal, 33998, 34045
-recovered pasa_asmbl_27000.p1, internal, 32543, 32719
-recovered pasa_asmbl_27000.p1, internal, 33099, 33158
-recovered pasa_asmbl_27000.p1, internal, 33690, 33874
Valid prediction for pasa_asmbl_26990.p1
Valid prediction for GeneMark_model.83426_t
Valid prediction for GlimmerHMM_glimmerT_47837-T1
Valid prediction for HiQ_model.g31921.t1
Valid prediction for Augustus_model.g31930.t1
Valid prediction for GlimmerHMM_glimmerT_47844-T1
Valid prediction for GeneMark_model.83445_t
Valid prediction for snap_scaffold_20-snap.2184-T1
Valid prediction for Augustus_model.g31914.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 84637, rend_intergenic: 84025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 176933
-exon list size: 309


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.3    
2.6    
2.9    
3.2    
3.5    
3.9    
4.2    
4.5    
4.8    
5.1    
5.5    
5.8    
6.1    
6.4    
6.8    
7.1    
7.4    
7.7    
8.0    
8.4    
8.7    
9.0    
9.3    
9.6    
10.0    
10.3    
10.6    
10.9    
11.3    
11.6    
11.9    
12.2    
12.5    
12.9    
13.2    
13.5    
13.8    
14.1    
14.5    
14.8    
15.1    
15.4    
15.8    
16.1    
16.4    
16.7    
17.0    
17.4    
17.7    
18.0    
18.3    
18.6    
19.0    
19.3    
19.6    
19.9    
20.3    
20.6    
20.9    
21.2    
21.5    
21.9    
22.2    
22.5    
22.8    
23.2    
23.5    
23.8    
24.1    
24.4    
24.8    
25.1    
25.4    
25.7    
26.0    
26.4    
26.7    
27.0    
27.3    
27.7    
28.0    
28.3    
28.6    
28.9    
29.3    
29.6    
29.9    
30.2    
30.5    
30.9    
31.2    
31.5    
31.8    
32.2    
32.5    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.7    
35.0    
35.4    
35.7    
36.0    
36.3    
36.7    
37.0    
37.3    
37.6    
37.9    
38.3    
38.6    
38.9    
39.2    
39.5    
39.9    
40.2    
40.5    
40.8    
41.2    
41.5    
41.8    
42.1    
42.4    
42.8    
43.1    
43.4    
43.7    
44.1    
44.4    
44.7    
45.0    
45.3    
45.7    
46.0    
46.3    
46.6    
46.9    
47.3    
47.6    
47.9    
48.2    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.8    
52.1    
52.4    
52.7    
53.1    
53.4    
53.7    
54.0    
54.3    
54.7    
55.0    
55.3    
55.6    
55.9    
56.3    
56.6    
56.9    
57.2    
57.6    
57.9    
58.2    
58.5    
58.8    
59.2    
59.5    
59.8    
60.1    
60.5    
60.8    
61.1    
61.4    
61.7    
62.1    
62.4    
62.7    
63.0    
63.3    
63.7    
64.0    
64.3    
64.6    
65.0    
65.3    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.5    
67.8    
68.2    
68.5    
68.8    
69.1    
69.5    
69.8    
70.1    
70.4    
70.7    
71.1    
71.4    
71.7    
72.0    
72.3    
72.7    
73.0    
73.3    
73.6    
74.0    
74.3    
74.6    
74.9    
75.2    
75.6    
75.9    
76.2    
76.5    
76.8    
77.2    
77.5    
77.8    
78.1    
78.5    
78.8    
79.1    
79.4    
79.7    
80.1    
80.4    
80.7    
81.0    
81.4    
81.7    
82.0    
82.3    
82.6    
83.0    
83.3    
83.6    
83.9    
84.2    
84.6    
84.9    
85.2    
85.5    
85.9    
86.2    
86.5    
86.8    
87.1    
87.5    
87.8    
88.1    
88.4    
88.7    
89.1    
89.4    
89.7    
90.0    
90.4    
90.7    
91.0    
91.3    
91.6    
92.0    
92.3    
92.6    
92.9    
93.2    
93.6    
93.9    
94.2    
94.5    
94.9    
95.2    
95.5    
95.8    
96.1    
96.5    
96.8    
97.1    
97.4    
97.7    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 84637, rend_intergenic: 84025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support