-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_3028716-3176999

-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_56964-T1
Valid prediction for pasa_asmbl_36176.p1
Valid prediction for snap_scaffold_27-snap.732-T1
Valid prediction for Augustus_model.g37746.t1
Valid prediction for snap_scaffold_27-snap.725-T1
Valid prediction for snap_scaffold_27-snap.721-T1
Valid prediction for Augustus_model.g37742.t1
Valid prediction for GlimmerHMM_glimmerT_56968-T1
Valid prediction for Augustus_model.g37748.t1
Valid prediction for HiQ_model.g37743.t1
Valid prediction for snap_scaffold_27-snap.739-T1
Valid prediction for snap_scaffold_27-snap.712-T1
Valid prediction for snap_scaffold_27-snap.731-T1
Valid prediction for GlimmerHMM_glimmerT_56960-T1
Valid prediction for snap_scaffold_27-snap.736-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_56946-T1
Valid prediction for GlimmerHMM_glimmerT_56956-T1
Valid prediction for pasa_asmbl_36187.p1
Valid prediction for Augustus_model.g37751.t1
Valid prediction for GlimmerHMM_glimmerT_56950-T1
Valid prediction for Augustus_model.g37755.t1
Valid prediction for CodingQuarry_transcript_41847-T1
Valid prediction for pasa_asmbl_36185.p1
Valid prediction for GlimmerHMM_glimmerT_56962-T1
Valid prediction for GlimmerHMM_glimmerT_56947-T1
Valid prediction for HiQ_model.g37744.t1
Valid prediction for snap_scaffold_27-snap.737-T1
Valid prediction for snap_scaffold_27-snap.717-T1
Valid prediction for CodingQuarry_transcript_41848-T1
Couldn't classify 104395, 104502
Sorry, prediction CodingQuarry_transcript_41849-T1 fails validation.
(ATG)	 TG	101545-101596	GT	CTG
(ATG)	 AG	102468-102503	GT	AGG
(ATC)	 AG	102809-102877	GT	CGG
(GTG)	 AG	102981-103237	GT	GGG
(GTG)	 AG	103324-103445	GT	TGG
(TGT)	 AG	103915-104116	GT	AGG
(GTC)	 AG	104222-104279	GT	GAG
(GTG)	 GG	104395-104502	GT	AAG
(GCG)	 AG	104589-104647	CA	AAC
-recovered CodingQuarry_transcript_41849-T1, initial, 101545, 101596
-recovered CodingQuarry_transcript_41849-T1, initial, 102468, 102503
-recovered CodingQuarry_transcript_41849-T1, terminal, 104589, 104647
-recovered CodingQuarry_transcript_41849-T1, internal, 102468, 102503
-recovered CodingQuarry_transcript_41849-T1, internal, 102809, 102877
-recovered CodingQuarry_transcript_41849-T1, internal, 102981, 103237
-recovered CodingQuarry_transcript_41849-T1, internal, 103324, 103445
-recovered CodingQuarry_transcript_41849-T1, internal, 103915, 104116
-recovered CodingQuarry_transcript_41849-T1, internal, 104222, 104279
Valid prediction for snap_scaffold_27-snap.727-T1
Valid prediction for snap_scaffold_27-snap.714-T1
Valid prediction for snap_scaffold_27-snap.723-T1
Valid prediction for GlimmerHMM_glimmerT_56963-T1
Valid prediction for pasa_asmbl_36178.p1
Valid prediction for CodingQuarry_transcript_41844-T1
Valid prediction for snap_scaffold_27-snap.720-T1
Valid prediction for GlimmerHMM_glimmerT_56954-T1
Valid prediction for GlimmerHMM_glimmerT_56958-T1
Valid prediction for snap_scaffold_27-snap.715-T1
Valid prediction for snap_scaffold_27-snap.719-T1
Valid prediction for GlimmerHMM_glimmerT_56952-T1
Valid prediction for snap_scaffold_27-snap.716-T1
Valid prediction for GlimmerHMM_glimmerT_56955-T1
Couldn't classify 99815, 100270
Sorry, prediction pasa_asmbl_36188.p1 fails validation.
(CCC)	 AT	99815-100270	GT	TGG
(GTT)	 AG	101258-101334	GT	CGG
(CCC)	 AG	101436-101596	GT	CTG
(ATG)	 AG	102468-102503	GT	AGG
(ATC)	 AG	102809-102877	GT	CGG
(GTG)	 AG	102981-103237	GT	GGG
(GTG)	 AG	103324-103445	GT	TGG
(TGT)	 AG	103915-104116	GT	AGG
(GTC)	 AG	104222-104279	GT	GAG
(GTG)	 AG	104407-104502	GT	AAG
(GCG)	 AG	104589-104647	CA	AAC
-recovered pasa_asmbl_36188.p1, initial, 102468, 102503
-recovered pasa_asmbl_36188.p1, terminal, 104589, 104647
-recovered pasa_asmbl_36188.p1, internal, 101258, 101334
-recovered pasa_asmbl_36188.p1, internal, 101436, 101596
-recovered pasa_asmbl_36188.p1, internal, 102468, 102503
-recovered pasa_asmbl_36188.p1, internal, 102809, 102877
-recovered pasa_asmbl_36188.p1, internal, 102981, 103237
-recovered pasa_asmbl_36188.p1, internal, 103324, 103445
-recovered pasa_asmbl_36188.p1, internal, 103915, 104116
-recovered pasa_asmbl_36188.p1, internal, 104222, 104279
-recovered pasa_asmbl_36188.p1, internal, 104407, 104502
Valid prediction for GlimmerHMM_glimmerT_56961-T1
Valid prediction for Augustus_model.g37740.t1
Valid prediction for GlimmerHMM_glimmerT_56951-T1
Valid prediction for Augustus_model.g37745.t1
Valid prediction for GlimmerHMM_glimmerT_56973-T1
Valid prediction for CodingQuarry_transcript_41845-T1
Valid prediction for snap_scaffold_27-snap.733-T1
Valid prediction for pasa_asmbl_36183.p1
Valid prediction for Augustus_model.g37753.t1
Valid prediction for snap_scaffold_27-snap.728-T1
Valid prediction for HiQ_model.g37750.t1
Valid prediction for HiQ_model.g37752.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_27-snap.722-T1
Valid prediction for GlimmerHMM_glimmerT_56971-T1
Valid prediction for Augustus_model.g37756.t1
Valid prediction for CodingQuarry_transcript_41846-T1
Couldn't classify 86477, 86600
Sorry, prediction pasa_asmbl_36889.p2 fails validation.
(ATG)	 TC	85108-85300	GT	CGG
(GTC)	 AG	85562-85716	GT	AGG
(GGT)	 AG	85842-85974	GT	GGG
(CTC)	 AG	86175-86346	GT	TGG
(GCA)	 AG	86477-86600	GT	AGG
-recovered pasa_asmbl_36889.p2, initial, 85108, 85300
-recovered pasa_asmbl_36889.p2, internal, 85562, 85716
-recovered pasa_asmbl_36889.p2, internal, 85842, 85974
-recovered pasa_asmbl_36889.p2, internal, 86175, 86346
-recovered pasa_asmbl_36889.p2, internal, 86477, 86600
Valid prediction for GlimmerHMM_glimmerT_56967-T1
Valid prediction for snap_scaffold_27-snap.744-T1
Valid prediction for GlimmerHMM_glimmerT_56966-T1
Valid prediction for snap_scaffold_27-snap.734-T1
Valid prediction for snap_scaffold_27-snap.726-T1
Valid prediction for snap_scaffold_27-snap.730-T1
Valid prediction for snap_scaffold_27-snap.713-T1
Valid prediction for snap_scaffold_27-snap.724-T1
Valid prediction for GlimmerHMM_glimmerT_56953-T1
Valid prediction for snap_scaffold_27-snap.729-T1
Valid prediction for Augustus_model.g37749.t1
Valid prediction for GlimmerHMM_glimmerT_56949-T1
Valid prediction for snap_scaffold_27-snap.741-T1
Valid prediction for HiQ_model.g37757.t1
Valid prediction for Augustus_model.g37758.t1
Valid prediction for snap_scaffold_27-snap.735-T1
Valid prediction for GlimmerHMM_glimmerT_56965-T1
Valid prediction for GlimmerHMM_glimmerT_56959-T1
Valid prediction for Augustus_model.g37754.t1
Couldn't classify 10098, 10478
Sorry, prediction GlimmerHMM_glimmerT_56972-T1 fails validation.
(ATG)	 AG	7342-7464	GT	AGG
(NNN)	 AN	10098-10478	GA	GAG
-recovered GlimmerHMM_glimmerT_56972-T1, initial, 7342, 7464
-recovered GlimmerHMM_glimmerT_56972-T1, internal, 7342, 7464
Valid prediction for snap_scaffold_27-snap.718-T1
Valid prediction for snap_scaffold_27-snap.738-T1
Valid prediction for Augustus_model.g37747.t1
Valid prediction for snap_scaffold_27-snap.740-T1
Valid prediction for snap_scaffold_27-snap.742-T1
Valid prediction for GlimmerHMM_glimmerT_56970-T1
Valid prediction for snap_scaffold_27-snap.743-T1
Valid prediction for GlimmerHMM_glimmerT_56969-T1
Valid prediction for GlimmerHMM_glimmerT_56957-T1
Valid prediction for Augustus_model.g37741.t1
Valid prediction for GlimmerHMM_glimmerT_56948-T1
Valid prediction for Augustus_model.g37759.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 33507, rend_intergenic: 29143  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81376, rend_intergenic: 78754  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90740, rend_intergenic: 87266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113547, rend_intergenic: 108545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 148284
-exon list size: 349


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    
4.6    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
17.9    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.6    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.3    
31.6    
31.9    
32.2    
32.5    
32.8    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.2    
67.5    
67.8    
68.1    
68.4    
68.7    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.4    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.4    
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 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 33507, rend_intergenic: 29143  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81376, rend_intergenic: 78754  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90740, rend_intergenic: 87266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113547, rend_intergenic: 108545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support