-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_10442796-10708972

-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 Augustus_model.g13976.t1
Valid prediction for GeneMark_model.35667_t
Valid prediction for CodingQuarry_transcript_59648-T1
Valid prediction for GlimmerHMM_glimmerT_20878-T1
Valid prediction for GeneMark_model.35649_t
Valid prediction for GeneMark_model.35676_t
Valid prediction for GlimmerHMM_glimmerT_20873-T1
Valid prediction for GeneMark_model.35648_t
Valid prediction for HiQ_model.g13972.t1
Valid prediction for GeneMark_model.35679_t
Valid prediction for GeneMark_model.35677_t
Valid prediction for CodingQuarry_transcript_59649-T1
Valid prediction for pasa_asmbl_52160.p1
Valid prediction for GlimmerHMM_glimmerT_20891-T1
Valid prediction for snap_scaffold_8-snap.2067-T1
Valid prediction for GeneMark_model.35680_t
Couldn't classify 122903, 122997
Sorry, prediction pasa_asmbl_52165.p1 fails validation.
(GGT)	 CA	122903-122997	GT	ATG
(ACT)	 AG	123226-123304	GT	GGG
(CTC)	 AG	123412-123491	GT	GTG
(GAG)	 AG	123576-124161	AC	AAA
-recovered pasa_asmbl_52165.p1, terminal, 123576, 124161
-recovered pasa_asmbl_52165.p1, internal, 123226, 123304
-recovered pasa_asmbl_52165.p1, internal, 123412, 123491
Valid prediction for snap_scaffold_8-snap.2034-T1
Valid prediction for Augustus_model.g13985.t1
Valid prediction for snap_scaffold_8-snap.2038-T1
Valid prediction for GeneMark_model.35671_t
Valid prediction for snap_scaffold_8-snap.2061-T1
Valid prediction for GlimmerHMM_glimmerT_20886-T1
Valid prediction for GeneMark_model.35656_t
Valid prediction for GeneMark_model.35645_t
Valid prediction for snap_scaffold_8-snap.2064-T1
Valid prediction for GeneMark_model.35682_t
Valid prediction for GlimmerHMM_glimmerT_20885-T1
Valid prediction for GlimmerHMM_glimmerT_20890-T1
Valid prediction for snap_scaffold_8-snap.2042-T1
Valid prediction for GlimmerHMM_glimmerT_20870-T1
Valid prediction for snap_scaffold_8-snap.2055-T1
Valid prediction for GeneMark_model.35674_t
Valid prediction for GeneMark_model.35683_t
Valid prediction for GeneMark_model.35669_t
Valid prediction for GlimmerHMM_glimmerT_20888-T1
Valid prediction for GlimmerHMM_glimmerT_20871-T1
Valid prediction for snap_scaffold_8-snap.2040-T1
Valid prediction for GeneMark_model.35655_t
Valid prediction for GeneMark_model.35684_t
Valid prediction for GlimmerHMM_glimmerT_20868-T1
Valid prediction for GeneMark_model.35650_t
Valid prediction for GlimmerHMM_glimmerT_20877-T1
Valid prediction for snap_scaffold_8-snap.2041-T1
Valid prediction for GlimmerHMM_glimmerT_20876-T1
Valid prediction for snap_scaffold_8-snap.2033-T1
Valid prediction for GeneMark_model.35659_t
Valid prediction for snap_scaffold_8-snap.2058-T1
Couldn't classify 111861, 111998
Couldn't classify 116162, 116225
Sorry, prediction pasa_asmbl_52163.p1 fails validation.
(ATC)	 TC	111861-111998	GT	TGG
(GAG)	 AG	112380-112490	GT	AGG
(TTG)	 AG	112918-113003	GT	ACG
(CCA)	 AG	113132-113330	GT	AGG
(GAC)	 AG	113562-113660	GT	AGG
(GTG)	 AG	115849-115925	GT	AGG
(CGA)	 AG	116162-116225	GC	AGG
-recovered pasa_asmbl_52163.p1, internal, 112380, 112490
-recovered pasa_asmbl_52163.p1, internal, 112918, 113003
-recovered pasa_asmbl_52163.p1, internal, 113132, 113330
-recovered pasa_asmbl_52163.p1, internal, 113562, 113660
-recovered pasa_asmbl_52163.p1, internal, 115849, 115925
-recovered pasa_asmbl_52163.p1, internal, 116162, 116225
Valid prediction for Augustus_model.g13988.t1
Valid prediction for GeneMark_model.35664_t
Valid prediction for snap_scaffold_8-snap.2036-T1
Valid prediction for Augustus_model.g13975.t1
Valid prediction for snap_scaffold_8-snap.2032-T1
Couldn't classify 117392, 117460
Sorry, prediction pasa_asmbl_52164.p1 fails validation.
(AAC)	 TC	117392-117460	GT	CTG
(TTG)	 AG	117924-118019	GT	ATG
(ATA)	 AG	118777-118890	GT	AGG
(CTT)	 AG	119054-119134	TG	AAT
-recovered pasa_asmbl_52164.p1, terminal, 119054, 119134
-recovered pasa_asmbl_52164.p1, internal, 117924, 118019
-recovered pasa_asmbl_52164.p1, internal, 118777, 118890
Valid prediction for Augustus_model.g13991.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 GlimmerHMM_glimmerT_20884-T1
Valid prediction for snap_scaffold_8-snap.2065-T1
Valid prediction for GlimmerHMM_glimmerT_20880-T1
Valid prediction for GlimmerHMM_glimmerT_20875-T1
Valid prediction for snap_scaffold_8-snap.2048-T1
Valid prediction for GeneMark_model.35660_t
Valid prediction for Augustus_model.g13986.t1
Valid prediction for Augustus_model.g13971.t1
Valid prediction for GeneMark_model.35670_t
Valid prediction for snap_scaffold_8-snap.2053-T1
Valid prediction for GlimmerHMM_glimmerT_20879-T1
Valid prediction for snap_scaffold_8-snap.2062-T1
Couldn't classify 216418, 216537
Sorry, prediction pasa_asmbl_53102.p1 fails validation.
(CAG)	 TT	216418-216537	GT	CTG
(GTG)	 AG	216919-217068	GT	AGG
(ATC)	 AG	217445-217609	GT	AGG
(CAT)	 AG	217994-218110	GT	AGG
(GAG)	 AG	218492-218596	GT	AGG
(GGG)	 AG	218886-218982	GT	TGG
(GAG)	 AG	219283-219395	GT	GGG
(TCG)	 AG	219915-220005	GT	AGG
(ACC)	 AG	220226-220365	GT	AGG
(CTC)	 AG	220667-220801	CC	GAC
-recovered pasa_asmbl_53102.p1, terminal, 220667, 220801
-recovered pasa_asmbl_53102.p1, internal, 216919, 217068
-recovered pasa_asmbl_53102.p1, internal, 217445, 217609
-recovered pasa_asmbl_53102.p1, internal, 217994, 218110
-recovered pasa_asmbl_53102.p1, internal, 218492, 218596
-recovered pasa_asmbl_53102.p1, internal, 218886, 218982
-recovered pasa_asmbl_53102.p1, internal, 219283, 219395
-recovered pasa_asmbl_53102.p1, internal, 219915, 220005
-recovered pasa_asmbl_53102.p1, internal, 220226, 220365
Valid prediction for snap_scaffold_8-snap.2052-T1
Valid prediction for GlimmerHMM_glimmerT_20874-T1
Valid prediction for Augustus_model.g13990.t1
Valid prediction for GeneMark_model.35665_t
Valid prediction for Augustus_model.g13979.t1
Valid prediction for snap_scaffold_8-snap.2031-T1
Valid prediction for GeneMark_model.35652_t
Valid prediction for Augustus_model.g13987.t1
Valid prediction for HiQ_model.g13973.t1
Valid prediction for Augustus_model.g13983.t1
Valid prediction for GeneMark_model.35651_t
Valid prediction for Augustus_model.g13974.t1
Valid prediction for snap_scaffold_8-snap.2054-T1
Valid prediction for Augustus_model.g13989.t1
Valid prediction for snap_scaffold_8-snap.2056-T1
Valid prediction for GeneMark_model.35675_t
Valid prediction for snap_scaffold_8-snap.2046-T1
Valid prediction for Augustus_model.g13977.t1
Valid prediction for GlimmerHMM_glimmerT_20883-T1
Valid prediction for pasa_asmbl_53111.p1
Valid prediction for GeneMark_model.35662_t
Valid prediction for snap_scaffold_8-snap.2059-T1
Valid prediction for GeneMark_model.35666_t
Valid prediction for Augustus_model.g13982.t1
Valid prediction for HiQ_model.g13978.t1
Valid prediction for HiQ_model.g13981.t1
Valid prediction for snap_scaffold_8-snap.2051-T1
Valid prediction for snap_scaffold_8-snap.2060-T1
Valid prediction for snap_scaffold_8-snap.2044-T1
Valid prediction for snap_scaffold_8-snap.2043-T1
Valid prediction for GlimmerHMM_glimmerT_20887-T1
Valid prediction for GeneMark_model.35658_t
Valid prediction for GeneMark_model.35673_t
Valid prediction for GeneMark_model.35672_t
Valid prediction for snap_scaffold_8-snap.2066-T1
Valid prediction for snap_scaffold_8-snap.2045-T1
Valid prediction for snap_scaffold_8-snap.2057-T1
Valid prediction for GeneMark_model.35678_t
Valid prediction for GeneMark_model.35661_t
Valid prediction for snap_scaffold_8-snap.2047-T1
Valid prediction for GeneMark_model.35668_t
Valid prediction for GlimmerHMM_glimmerT_20869-T1
Valid prediction for GlimmerHMM_glimmerT_20889-T1
Valid prediction for snap_scaffold_8-snap.2050-T1
Valid prediction for GlimmerHMM_glimmerT_20867-T1
Valid prediction for GlimmerHMM_glimmerT_20872-T1
Valid prediction for GeneMark_model.35681_t
Valid prediction for snap_scaffold_8-snap.2035-T1
Valid prediction for snap_scaffold_8-snap.2063-T1
Valid prediction for snap_scaffold_8-snap.2049-T1
Valid prediction for GlimmerHMM_glimmerT_20881-T1
Valid prediction for snap_scaffold_8-snap.2037-T1
Valid prediction for GeneMark_model.35647_t
Couldn't classify 130488, 130586
Sorry, prediction pasa_asmbl_53107.p1 fails validation.
(CCA)	 AG	130488-130586	GT	TTG
(GGT)	 AG	131212-131363	GT	GGG
(GTA)	 AG	131658-131763	GT	AGG
(GTC)	 AG	132174-132239	GT	TGG
(GAC)	 AG	132511-132588	AC	AGA
-recovered pasa_asmbl_53107.p1, terminal, 132511, 132588
-recovered pasa_asmbl_53107.p1, internal, 130488, 130586
-recovered pasa_asmbl_53107.p1, internal, 131212, 131363
-recovered pasa_asmbl_53107.p1, internal, 131658, 131763
-recovered pasa_asmbl_53107.p1, internal, 132174, 132239
Couldn't classify 119573, 119659
Sorry, prediction pasa_asmbl_53109.p1 fails validation.
(CTG)	 AG	119573-119659	GT	TGG
(ATC)	 AG	119976-120210	GT	AGG
(AGC)	 AG	120568-120653	GT	AGG
(GCT)	 AG	120741-120825	GT	AGG
(AGG)	 AG	120946-121094	GT	TCG
(CCC)	 AG	121188-121295	GT	CGG
(GTG)	 AG	123457-123563	GT	AAG
(GTG)	 AG	125853-125907	TG	GAT
-recovered pasa_asmbl_53109.p1, terminal, 125853, 125907
-recovered pasa_asmbl_53109.p1, internal, 119573, 119659
-recovered pasa_asmbl_53109.p1, internal, 119976, 120210
-recovered pasa_asmbl_53109.p1, internal, 120568, 120653
-recovered pasa_asmbl_53109.p1, internal, 120741, 120825
-recovered pasa_asmbl_53109.p1, internal, 120946, 121094
-recovered pasa_asmbl_53109.p1, internal, 121188, 121295
-recovered pasa_asmbl_53109.p1, internal, 123457, 123563
Valid prediction for Augustus_model.g13980.t1
Valid prediction for GeneMark_model.35653_t
Valid prediction for GlimmerHMM_glimmerT_20882-T1
Valid prediction for GeneMark_model.35646_t
Valid prediction for GeneMark_model.35657_t
Valid prediction for Augustus_model.g13984.t1
Valid prediction for snap_scaffold_8-snap.2039-T1
Valid prediction for GeneMark_model.35663_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 48202, rend_intergenic: 47553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200149, rend_intergenic: 197601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222283, rend_intergenic: 218978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231439, rend_intergenic: 228376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 246473, rend_intergenic: 241685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 259855, rend_intergenic: 255610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 126330, rend_intergenic: 126327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 266177
-exon list size: 510


building trellis

0.2    
0.4    
0.6    
0.8    
1.0    
1.2    
1.4    
1.6    
1.8    
2.0    
2.1    
2.3    
2.5    
2.7    
2.9    
3.1    
3.3    
3.5    
3.7    
3.9    
4.1    
4.3    
4.5    
4.7    
4.9    
5.1    
5.3    
5.5    
5.7    
5.9    
6.1    
6.2    
6.4    
6.6    
6.8    
7.0    
7.2    
7.4    
7.6    
7.8    
8.0    
8.2    
8.4    
8.6    
8.8    
9.0    
9.2    
9.4    
9.6    
9.8    
10.0    
10.2    
10.4    
10.5    
10.7    
10.9    
11.1    
11.3    
11.5    
11.7    
11.9    
12.1    
12.3    
12.5    
12.7    
12.9    
13.1    
13.3    
13.5    
13.7    
13.9    
14.1    
14.3    
14.5    
14.6    
14.8    
15.0    
15.2    
15.4    
15.6    
15.8    
16.0    
16.2    
16.4    
16.6    
16.8    
17.0    
17.2    
17.4    
17.6    
17.8    
18.0    
18.2    
18.4    
18.6    
18.8    
18.9    
19.1    
19.3    
19.5    
19.7    
19.9    
20.1    
20.3    
20.5    
20.7    
20.9    
21.1    
21.3    
21.5    
21.7    
21.9    
22.1    
22.3    
22.5    
22.7    
22.9    
23.0    
23.2    
23.4    
23.6    
23.8    
24.0    
24.2    
24.4    
24.6    
24.8    
25.0    
25.2    
25.4    
25.6    
25.8    
26.0    
26.2    
26.4    
26.6    
26.8    
27.0    
27.1    
27.3    
27.5    
27.7    
27.9    
28.1    
28.3    
28.5    
28.7    
28.9    
29.1    
29.3    
29.5    
29.7    
29.9    
30.1    
30.3    
30.5    
30.7    
30.9    
31.1    
31.2    
31.4    
31.6    
31.8    
32.0    
32.2    
32.4    
32.6    
32.8    
33.0    
33.2    
33.4    
33.6    
33.8    
34.0    
34.2    
34.4    
34.6    
34.8    
35.0    
35.2    
35.4    
35.5    
35.7    
35.9    
36.1    
36.3    
36.5    
36.7    
36.9    
37.1    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.5    
38.7    
38.9    
39.1    
39.3    
39.5    
39.6    
39.8    
40.0    
40.2    
40.4    
40.6    
40.8    
41.0    
41.2    
41.4    
41.6    
41.8    
42.0    
42.2    
42.4    
42.6    
42.8    
43.0    
43.2    
43.4    
43.6    
43.8    
43.9    
44.1    
44.3    
44.5    
44.7    
44.9    
45.1    
45.3    
45.5    
45.7    
45.9    
46.1    
46.3    
46.5    
46.7    
46.9    
47.1    
47.3    
47.5    
47.7    
47.9    
48.0    
48.2    
48.4    
48.6    
48.8    
49.0    
49.2    
49.4    
49.6    
49.8    
50.0    
50.2    
50.4    
50.6    
50.8    
51.0    
51.2    
51.4    
51.6    
51.8    
52.0    
52.1    
52.3    
52.5    
52.7    
52.9    
53.1    
53.3    
53.5    
53.7    
53.9    
54.1    
54.3    
54.5    
54.7    
54.9    
55.1    
55.3    
55.5    
55.7    
55.9    
56.1    
56.2    
56.4    
56.6    
56.8    
57.0    
57.2    
57.4    
57.6    
57.8    
58.0    
58.2    
58.4    
58.6    
58.8    
59.0    
59.2    
59.4    
59.6    
59.8    
60.0    
60.2    
60.4    
60.5    
60.7    
60.9    
61.1    
61.3    
61.5    
61.7    
61.9    
62.1    
62.3    
62.5    
62.7    
62.9    
63.1    
63.3    
63.5    
63.7    
63.9    
64.1    
64.3    
64.5    
64.6    
64.8    
65.0    
65.2    
65.4    
65.6    
65.8    
66.0    
66.2    
66.4    
66.6    
66.8    
67.0    
67.2    
67.4    
67.6    
67.8    
68.0    
68.2    
68.4    
68.6    
68.8    
68.9    
69.1    
69.3    
69.5    
69.7    
69.9    
70.1    
70.3    
70.5    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
71.9    
72.1    
72.3    
72.5    
72.7    
72.9    
73.0    
73.2    
73.4    
73.6    
73.8    
74.0    
74.2    
74.4    
74.6    
74.8    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.8    
77.0    
77.1    
77.3    
77.5    
77.7    
77.9    
78.1    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.7    
79.9    
80.1    
80.3    
80.5    
80.7    
80.9    
81.1    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.8    
84.0    
84.2    
84.4    
84.6    
84.8    
85.0    
85.2    
85.4    
85.5    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
86.9    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.3    
88.5    
88.7    
88.9    
89.1    
89.3    
89.5    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
92.2    
92.4    
92.6    
92.8    
93.0    
93.2    
93.4    
93.6    
93.8    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.1    
97.3    
97.5    
97.7    
97.9    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 48202, rend_intergenic: 47553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200149, rend_intergenic: 197601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222283, rend_intergenic: 218978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231439, rend_intergenic: 228376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 246473, rend_intergenic: 241685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 259855, rend_intergenic: 255610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 126330, rend_intergenic: 126327  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