-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_1517135-1665761

-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_6-snap.380-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.382-T1
Valid prediction for HiQ_model.g9335.t1
Valid prediction for snap_scaffold_6-snap.355-T1
Valid prediction for snap_scaffold_6-snap.367-T1
Valid prediction for snap_scaffold_6-snap.375-T1
Valid prediction for Augustus_model.g9346.t1
Couldn't classify 58478, 58601
Couldn't classify 62003, 62174
Sorry, prediction pasa_asmbl_46719.p1 fails validation.
(GCC)	 AC	58478-58601	GT	TGG
(GTC)	 AG	59225-59403	GT	AGG
(CGC)	 AG	59671-59873	GT	AGG
(AAC)	 AG	61674-61754	GT	AGG
(GTT)	 AG	62003-62174	GC	TGG
-recovered pasa_asmbl_46719.p1, terminal, 59671, 59873
-recovered pasa_asmbl_46719.p1, internal, 59225, 59403
-recovered pasa_asmbl_46719.p1, internal, 59671, 59873
-recovered pasa_asmbl_46719.p1, internal, 61674, 61754
-recovered pasa_asmbl_46719.p1, internal, 62003, 62174
Valid prediction for snap_scaffold_6-snap.361-T1
Valid prediction for snap_scaffold_6-snap.358-T1
Valid prediction for GlimmerHMM_glimmerT_14066-T1
Valid prediction for snap_scaffold_6-snap.371-T1
Couldn't classify 32316, 32345
Sorry, prediction pasa_asmbl_46717.p1 fails validation.
(CTA)	 AT	32316-32345	GT	CCG
(ATC)	 AG	32611-32727	GT	TGG
(GTG)	 AG	32843-32936	GT	CTG
(TGG)	 AG	33115-33194	AA	AGA
-recovered pasa_asmbl_46717.p1, terminal, 33115, 33194
-recovered pasa_asmbl_46717.p1, internal, 32611, 32727
-recovered pasa_asmbl_46717.p1, internal, 32843, 32936
Valid prediction for GlimmerHMM_glimmerT_14062-T1
Valid prediction for GlimmerHMM_glimmerT_14061-T1
Valid prediction for GlimmerHMM_glimmerT_14075-T1
Valid prediction for pasa_asmbl_46727.p1
Valid prediction for GlimmerHMM_glimmerT_14069-T1
Valid prediction for snap_scaffold_6-snap.379-T1
Valid prediction for snap_scaffold_6-snap.360-T1
Couldn't classify 105645, 105809
Couldn't classify 108494, 108700
Sorry, prediction pasa_asmbl_46729.p1 fails validation.
(ACG)	 AG	105645-105809	GT	AGG
(GTG)	 AG	108494-108700	CG	GGC
-recovered pasa_asmbl_46729.p1, internal, 105645, 105809
Valid prediction for GlimmerHMM_glimmerT_14071-T1
Valid prediction for Augustus_model.g9344.t1
Valid prediction for GlimmerHMM_glimmerT_14074-T1
Valid prediction for snap_scaffold_6-snap.368-T1
Valid prediction for Augustus_model.g9339.t1
Valid prediction for CodingQuarry_transcript_54923-T1
Valid prediction for GlimmerHMM_glimmerT_14064-T1
Valid prediction for Augustus_model.g9343.t1
Valid prediction for CodingQuarry_transcript_54926-T1
Valid prediction for snap_scaffold_6-snap.363-T1
Couldn't classify 63945, 64192
Couldn't classify 65139, 65351
Sorry, prediction pasa_asmbl_46720.p1 fails validation.
(CGC)	 CC	63945-64192	GT	AGG
(GTT)	 AG	64359-64554	GT	AGG
(ATC)	 AG	65139-65351	CA	TAC
-recovered pasa_asmbl_46720.p1, internal, 64359, 64554
Valid prediction for GlimmerHMM_glimmerT_14073-T1
Valid prediction for snap_scaffold_6-snap.356-T1
Valid prediction for snap_scaffold_6-snap.348-T1
Valid prediction for HiQ_model.g9333.t1
Valid prediction for snap_scaffold_6-snap.349-T1
Valid prediction for GlimmerHMM_glimmerT_14068-T1
Valid prediction for Augustus_model.g9337.t1
Valid prediction for snap_scaffold_6-snap.352-T1
Valid prediction for Augustus_model.g9340.t1
Valid prediction for snap_scaffold_6-snap.378-T1
Valid prediction for HiQ_model.g9342.t1
Valid prediction for pasa_asmbl_46725.p1

-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_6-snap.372-T1
Valid prediction for snap_scaffold_6-snap.353-T1
Valid prediction for GlimmerHMM_glimmerT_14058-T1
Valid prediction for CodingQuarry_transcript_54924-T1
Couldn't classify 22978, 23088
Couldn't classify 23556, 23678
Sorry, prediction pasa_asmbl_49380.p1 fails validation.
(GAT)	 AG	22978-23088	GT	AGG
(GAC)	 AG	23202-23303	GT	CTG
(GCT)	 AG	23556-23678	GG	TAG
-recovered pasa_asmbl_49380.p1, internal, 22978, 23088
-recovered pasa_asmbl_49380.p1, internal, 23202, 23303
Valid prediction for Augustus_model.g9347.t1
Valid prediction for Augustus_model.g9338.t1
Couldn't classify 117671, 117934
Sorry, prediction pasa_asmbl_48104.p1 fails validation.
(ATG)	 TG	116971-117064	GT	AGG
(GAG)	 AG	117407-117528	GT	AAG
(GAC)	 AG	117671-117934	TA	ACT
-recovered pasa_asmbl_48104.p1, initial, 116971, 117064
-recovered pasa_asmbl_48104.p1, internal, 117407, 117528
Valid prediction for Augustus_model.g9334.t1
Valid prediction for snap_scaffold_6-snap.376-T1
Valid prediction for snap_scaffold_6-snap.369-T1
Valid prediction for Augustus_model.g9341.t1
Valid prediction for snap_scaffold_6-snap.357-T1
Valid prediction for GlimmerHMM_glimmerT_14059-T1
Valid prediction for snap_scaffold_6-snap.366-T1
Couldn't classify 29174, 30022
Sorry, prediction pasa_asmbl_48106.p1 fails validation.
(CAC)	 CA	29174-30022	AT	AGA
Couldn't classify 25911, 26133
Sorry, prediction pasa_asmbl_48107.p1 fails validation.
(GGT)	 TA	25911-26133	GT	AGG
(CAG)	 AG	26580-26934	GT	GGG
(GGG)	 AG	27987-28083	CC	GAC
-recovered pasa_asmbl_48107.p1, terminal, 27987, 28083
-recovered pasa_asmbl_48107.p1, internal, 26580, 26934
Valid prediction for snap_scaffold_6-snap.373-T1
Valid prediction for GlimmerHMM_glimmerT_14070-T1
Valid prediction for GlimmerHMM_glimmerT_14060-T1
Valid prediction for snap_scaffold_6-snap.377-T1
Couldn't classify 129450, 129868
Couldn't classify 130285, 130485
Sorry, prediction pasa_asmbl_48102.p1 fails validation.
(AGT)	 GC	129450-129868	GT	GAG
(GCA)	 AG	129971-130016	GT	AGG
(GTA)	 AG	130285-130485	CC	CAC
-recovered pasa_asmbl_48102.p1, internal, 129971, 130016
Valid prediction for snap_scaffold_6-snap.365-T1
Valid prediction for snap_scaffold_6-snap.364-T1
Valid prediction for GlimmerHMM_glimmerT_14063-T1
Valid prediction for snap_scaffold_6-snap.374-T1
Valid prediction for snap_scaffold_6-snap.351-T1
Valid prediction for Augustus_model.g9331.t1
Valid prediction for Augustus_model.g9336.t1
Valid prediction for GlimmerHMM_glimmerT_14057-T1
Valid prediction for snap_scaffold_6-snap.350-T1
Valid prediction for snap_scaffold_6-snap.362-T1
Valid prediction for snap_scaffold_6-snap.381-T1
Valid prediction for snap_scaffold_6-snap.370-T1
Valid prediction for GlimmerHMM_glimmerT_14072-T1
Valid prediction for snap_scaffold_6-snap.359-T1
Valid prediction for GlimmerHMM_glimmerT_14067-T1
Valid prediction for Augustus_model.g9332.t1
Valid prediction for GlimmerHMM_glimmerT_14065-T1
Valid prediction for snap_scaffold_6-snap.354-T1
Valid prediction for Augustus_model.g9345.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15543, rend_intergenic: 5077  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26696, rend_intergenic: 17470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31153, rend_intergenic: 26722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39351, rend_intergenic: 34468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47884, rend_intergenic: 42203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51281, rend_intergenic: 48168  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69621, rend_intergenic: 54620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86836, rend_intergenic: 79523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92582, rend_intergenic: 88312  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104808, rend_intergenic: 92718  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110407, rend_intergenic: 104817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112903, rend_intergenic: 110452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130986, rend_intergenic: 113386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146942, rend_intergenic: 138178  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 148627
-exon list size: 338


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.6    
2.9    
3.2    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.4    
12.6    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.6    
17.9    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.0    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
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    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.6    
32.9    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.6    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.4    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.1    
67.4    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
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    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
80.0    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.4    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.4    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.4    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 15543, rend_intergenic: 5077  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26696, rend_intergenic: 17470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31153, rend_intergenic: 26722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39351, rend_intergenic: 34468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47884, rend_intergenic: 42203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51281, rend_intergenic: 48168  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69621, rend_intergenic: 54620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86836, rend_intergenic: 79523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92582, rend_intergenic: 88312  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104808, rend_intergenic: 92718  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110407, rend_intergenic: 104817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112903, rend_intergenic: 110452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130986, rend_intergenic: 113386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146942, rend_intergenic: 138178  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support