-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_9155095-9322454

-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_8-snap.1796-T1
Valid prediction for GlimmerHMM_glimmerT_20263-T1
Valid prediction for Augustus_model.g13485.t1
Valid prediction for snap_scaffold_8-snap.1783-T1
Valid prediction for Augustus_model.g13486.t1
Valid prediction for GlimmerHMM_glimmerT_20274-T1
Couldn't classify 116026, 116121
Couldn't classify 122054, 122153
Sorry, prediction pasa_asmbl_53064.p1 fails validation.
(GAG)	 AG	116026-116121	GT	AGG
(GGT)	 AG	116596-116678	GT	GGG
(GTT)	 AG	117449-117509	GT	CAG
(GTG)	 AG	117630-117743	GT	GGG
(GGC)	 AG	117873-118013	GT	AGG
(CTT)	 AG	119260-119338	GT	AGG
(AGG)	 AG	119542-119597	GT	GAG
(ACC)	 AG	119697-119759	GT	TGG
(TGT)	 AG	120008-120081	GT	AGG
(GTA)	 AG	120196-120307	GT	TGG
(GCG)	 AG	120409-120608	GT	GAG
(CCA)	 AG	122054-122153	TG	CCT
-recovered pasa_asmbl_53064.p1, internal, 116026, 116121
-recovered pasa_asmbl_53064.p1, internal, 116596, 116678
-recovered pasa_asmbl_53064.p1, internal, 117449, 117509
-recovered pasa_asmbl_53064.p1, internal, 117630, 117743
-recovered pasa_asmbl_53064.p1, internal, 117873, 118013
-recovered pasa_asmbl_53064.p1, internal, 119260, 119338
-recovered pasa_asmbl_53064.p1, internal, 119542, 119597
-recovered pasa_asmbl_53064.p1, internal, 119697, 119759
-recovered pasa_asmbl_53064.p1, internal, 120008, 120081
-recovered pasa_asmbl_53064.p1, internal, 120196, 120307
-recovered pasa_asmbl_53064.p1, internal, 120409, 120608
Valid prediction for snap_scaffold_8-snap.1777-T1
Valid prediction for GlimmerHMM_glimmerT_20271-T1
Valid prediction for snap_scaffold_8-snap.1794-T1
Valid prediction for snap_scaffold_8-snap.1809-T1
Valid prediction for Augustus_model.g13480.t1
Valid prediction for GlimmerHMM_glimmerT_20266-T1
Valid prediction for GlimmerHMM_glimmerT_20273-T1
Couldn't classify 109494, 110218
Couldn't classify 115006, 115068
Sorry, prediction pasa_asmbl_53063.p1 fails validation.
(TAC)	 AG	109494-110218	GT	TCG
(GAA)	 AG	110862-110970	GT	CCG
(GAA)	 AG	111352-111447	GT	TGG
(CAA)	 AG	112280-112357	GT	AGG
(ATC)	 AG	113597-113662	GT	AGG
(CCC)	 AG	113987-114055	GT	AGG
(GGC)	 AG	114146-114217	GT	CAG
(TAT)	 AG	114546-114662	GT	AGG
(ACA)	 AG	115006-115068	GG	AGG
-recovered pasa_asmbl_53063.p1, internal, 109494, 110218
-recovered pasa_asmbl_53063.p1, internal, 110862, 110970
-recovered pasa_asmbl_53063.p1, internal, 111352, 111447
-recovered pasa_asmbl_53063.p1, internal, 112280, 112357
-recovered pasa_asmbl_53063.p1, internal, 113597, 113662
-recovered pasa_asmbl_53063.p1, internal, 113987, 114055
-recovered pasa_asmbl_53063.p1, internal, 114146, 114217
-recovered pasa_asmbl_53063.p1, internal, 114546, 114662
Valid prediction for Augustus_model.g13481.t1
Couldn't classify 135911, 136035
Sorry, prediction pasa_asmbl_53068.p1 fails validation.
(CCC)	 CC	135911-136035	GT	AGG
(GGC)	 AG	136812-136868	GT	AGG
(GCC)	 AG	138139-138173	GT	AGG
(TGT)	 AG	139009-139058	GT	AGG
(CTG)	 AG	139244-139364	GT	TGG
(TCC)	 AG	139953-139989	GT	CAG
(CGG)	 AG	140104-140203	GT	AGG
(GGC)	 AG	142033-142149	CC	GAC
-recovered pasa_asmbl_53068.p1, terminal, 142033, 142149
-recovered pasa_asmbl_53068.p1, internal, 136812, 136868
-recovered pasa_asmbl_53068.p1, internal, 138139, 138173
-recovered pasa_asmbl_53068.p1, internal, 139009, 139058
-recovered pasa_asmbl_53068.p1, internal, 139244, 139364
-recovered pasa_asmbl_53068.p1, internal, 139953, 139989
-recovered pasa_asmbl_53068.p1, internal, 140104, 140203
Valid prediction for GlimmerHMM_glimmerT_20259-T1
Valid prediction for snap_scaffold_8-snap.1802-T1
Valid prediction for HiQ_model.g13487.t1
Valid prediction for snap_scaffold_8-snap.1797-T1
Valid prediction for GlimmerHMM_glimmerT_20268-T1
Valid prediction for snap_scaffold_8-snap.1780-T1
Couldn't classify 15453, 15816
Sorry, prediction pasa_asmbl_53058.p1 fails validation.
(GAC)	 CA	15453-15816	GT	AGG
(GCT)	 AG	16116-16427	GT	GGG
(GAG)	 AG	16732-17108	CA	AGC
-recovered pasa_asmbl_53058.p1, terminal, 16732, 17108
-recovered pasa_asmbl_53058.p1, internal, 16116, 16427
Valid prediction for snap_scaffold_8-snap.1789-T1
Valid prediction for Augustus_model.g13489.t1
Valid prediction for pasa_asmbl_53071.p1
Valid prediction for snap_scaffold_8-snap.1785-T1
Valid prediction for GlimmerHMM_glimmerT_20276-T1
Valid prediction for Augustus_model.g13483.t1
Valid prediction for snap_scaffold_8-snap.1782-T1
Valid prediction for Augustus_model.g13478.t1
Valid prediction for snap_scaffold_8-snap.1781-T1
Valid prediction for snap_scaffold_8-snap.1788-T1
Valid prediction for snap_scaffold_8-snap.1811-T1
Couldn't classify 126741, 126773
Couldn't classify 131566, 131769
Sorry, prediction pasa_asmbl_53067.p1 fails validation.
(TTC)	 CC	126741-126773	GT	AGG
(GAG)	 AG	128276-128345	GT	CTG
(CCA)	 AG	131339-131379	GT	AGG
(GAG)	 AG	131566-131769	TA	GGT
-recovered pasa_asmbl_53067.p1, internal, 128276, 128345
-recovered pasa_asmbl_53067.p1, internal, 131339, 131379
Valid prediction for GlimmerHMM_glimmerT_20272-T1
Valid prediction for CodingQuarry_transcript_59736-T1
Valid prediction for Augustus_model.g13488.t1
Valid prediction for snap_scaffold_8-snap.1806-T1
Valid prediction for GlimmerHMM_glimmerT_20269-T1
Valid prediction for GlimmerHMM_glimmerT_20262-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: -)Couldn't classify 40830, 41252
Sorry, prediction pasa_asmbl_53065.p2 fails validation.
(CAC)	 CT	40830-41252	TA	CAT
Valid prediction for GlimmerHMM_glimmerT_20264-T1
Valid prediction for snap_scaffold_8-snap.1804-T1
Valid prediction for snap_scaffold_8-snap.1790-T1
Valid prediction for snap_scaffold_8-snap.1778-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for Augustus_model.g13490.t1
Valid prediction for GlimmerHMM_glimmerT_20277-T1
Valid prediction for Augustus_model.g13484.t1
Valid prediction for GlimmerHMM_glimmerT_20265-T1
Valid prediction for snap_scaffold_8-snap.1786-T1
Valid prediction for snap_scaffold_8-snap.1793-T1
Valid prediction for GlimmerHMM_glimmerT_20270-T1
Valid prediction for pasa_asmbl_52023.p1
Valid prediction for GlimmerHMM_glimmerT_20261-T1
Valid prediction for snap_scaffold_8-snap.1805-T1
Valid prediction for snap_scaffold_8-snap.1808-T1
Valid prediction for snap_scaffold_8-snap.1795-T1
Valid prediction for CodingQuarry_transcript_59731-T1
Valid prediction for snap_scaffold_8-snap.1787-T1
Valid prediction for GlimmerHMM_glimmerT_20267-T1
Valid prediction for snap_scaffold_8-snap.1791-T1
Valid prediction for snap_scaffold_8-snap.1779-T1
Valid prediction for snap_scaffold_8-snap.1807-T1
Valid prediction for CodingQuarry_transcript_59734-T1
Valid prediction for Augustus_model.g13482.t1
Valid prediction for GlimmerHMM_glimmerT_20260-T1
Valid prediction for snap_scaffold_8-snap.1810-T1
Valid prediction for snap_scaffold_8-snap.1792-T1
Valid prediction for snap_scaffold_8-snap.1801-T1
Valid prediction for CodingQuarry_transcript_59732-T1
Valid prediction for HiQ_model.g13479.t1
Valid prediction for pasa_asmbl_52017.p1
Valid prediction for snap_scaffold_8-snap.1799-T1
Valid prediction for snap_scaffold_8-snap.1800-T1
Valid prediction for snap_scaffold_8-snap.1803-T1
Valid prediction for snap_scaffold_8-snap.1798-T1
Valid prediction for GlimmerHMM_glimmerT_20275-T1
Valid prediction for snap_scaffold_8-snap.1784-T1
Valid prediction for CodingQuarry_transcript_59733-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14187, rend_intergenic: 11201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26373, rend_intergenic: 24869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32200, rend_intergenic: 27206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49823, rend_intergenic: 38740  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71061, rend_intergenic: 52136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80967, rend_intergenic: 77821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86782, rend_intergenic: 81212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108599, rend_intergenic: 87557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126308, rend_intergenic: 113169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130757, rend_intergenic: 126997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140884, rend_intergenic: 130812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166265, rend_intergenic: 156702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 167360
-exon list size: 355


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
2.0    
2.2    
2.5    
2.8    
3.1    
3.4    
3.6    
3.9    
4.2    
4.5    
4.8    
5.0    
5.3    
5.6    
5.9    
6.2    
6.4    
6.7    
7.0    
7.3    
7.6    
7.8    
8.1    
8.4    
8.7    
9.0    
9.2    
9.5    
9.8    
10.1    
10.4    
10.6    
10.9    
11.2    
11.5    
11.8    
12.0    
12.3    
12.6    
12.9    
13.2    
13.4    
13.7    
14.0    
14.3    
14.6    
14.8    
15.1    
15.4    
15.7    
16.0    
16.2    
16.5    
16.8    
17.1    
17.4    
17.6    
17.9    
18.2    
18.5    
18.8    
19.0    
19.3    
19.6    
19.9    
20.2    
20.4    
20.7    
21.0    
21.3    
21.6    
21.8    
22.1    
22.4    
22.7    
23.0    
23.2    
23.5    
23.8    
24.1    
24.4    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.3    
26.6    
26.9    
27.2    
27.5    
27.7    
28.0    
28.3    
28.6    
28.9    
29.1    
29.4    
29.7    
30.0    
30.3    
30.5    
30.8    
31.1    
31.4    
31.7    
31.9    
32.2    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.2    
34.5    
34.7    
35.0    
35.3    
35.6    
35.9    
36.1    
36.4    
36.7    
37.0    
37.3    
37.5    
37.8    
38.1    
38.4    
38.7    
38.9    
39.2    
39.5    
39.8    
40.1    
40.3    
40.6    
40.9    
41.2    
41.5    
41.7    
42.0    
42.3    
42.6    
42.9    
43.1    
43.4    
43.7    
44.0    
44.3    
44.5    
44.8    
45.1    
45.4    
45.7    
45.9    
46.2    
46.5    
46.8    
47.1    
47.3    
47.6    
47.9    
48.2    
48.5    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.5    
51.8    
52.1    
52.4    
52.7    
52.9    
53.2    
53.5    
53.8    
54.1    
54.3    
54.6    
54.9    
55.2    
55.5    
55.7    
56.0    
56.3    
56.6    
56.9    
57.1    
57.4    
57.7    
58.0    
58.3    
58.5    
58.8    
59.1    
59.4    
59.7    
59.9    
60.2    
60.5    
60.8    
61.1    
61.3    
61.6    
61.9    
62.2    
62.5    
62.7    
63.0    
63.3    
63.6    
63.9    
64.1    
64.4    
64.7    
65.0    
65.3    
65.5    
65.8    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.8    
68.1    
68.3    
68.6    
68.9    
69.2    
69.5    
69.7    
70.0    
70.3    
70.6    
70.9    
71.1    
71.4    
71.7    
72.0    
72.3    
72.5    
72.8    
73.1    
73.4    
73.7    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.6    
75.9    
76.2    
76.5    
76.8    
77.0    
77.3    
77.6    
77.9    
78.2    
78.4    
78.7    
79.0    
79.3    
79.6    
79.8    
80.1    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.1    
82.4    
82.6    
82.9    
83.2    
83.5    
83.8    
84.0    
84.3    
84.6    
84.9    
85.2    
85.4    
85.7    
86.0    
86.3    
86.6    
86.8    
87.1    
87.4    
87.7    
88.0    
88.2    
88.5    
88.8    
89.1    
89.4    
89.6    
89.9    
90.2    
90.5    
90.8    
91.0    
91.3    
91.6    
91.9    
92.2    
92.4    
92.7    
93.0    
93.3    
93.6    
93.8    
94.1    
94.4    
94.7    
95.0    
95.2    
95.5    
95.8    
96.1    
96.4    
96.6    
96.9    
97.2    
97.5    
97.8    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 14187, rend_intergenic: 11201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26373, rend_intergenic: 24869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32200, rend_intergenic: 27206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49823, rend_intergenic: 38740  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71061, rend_intergenic: 52136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80967, rend_intergenic: 77821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86782, rend_intergenic: 81212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108599, rend_intergenic: 87557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126308, rend_intergenic: 113169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130757, rend_intergenic: 126997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140884, rend_intergenic: 130812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166265, rend_intergenic: 156702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support