-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_2807371-2952200

-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_35811-T1
Valid prediction for snap_scaffold_15-snap.591-T1
Valid prediction for GlimmerHMM_glimmerT_35815-T1
Valid prediction for HiQ_model.g23879.t1
Valid prediction for GlimmerHMM_glimmerT_35806-T1
Valid prediction for snap_scaffold_15-snap.613-T1
Couldn't classify 60062, 60213
Couldn't classify 60236, 60248
Sorry, prediction CodingQuarry_transcript_17948-T1 fails validation.
(ATG)	 TT	58244-58327	GT	AGG
(GTG)	 AG	58434-58595	GT	TGG
(CTG)	 AG	58951-59148	GT	AGG
(GAG)	 AG	59399-59539	GT	AGG
(ATC)	 AG	60062-60213	CC	GAC
(CCA)	 AC	60236-60248	CG	AGC
-recovered CodingQuarry_transcript_17948-T1, initial, 58244, 58327
-recovered CodingQuarry_transcript_17948-T1, internal, 58434, 58595
-recovered CodingQuarry_transcript_17948-T1, internal, 58951, 59148
-recovered CodingQuarry_transcript_17948-T1, internal, 59399, 59539
Valid prediction for snap_scaffold_15-snap.605-T1
Valid prediction for GlimmerHMM_glimmerT_35808-T1
Valid prediction for GlimmerHMM_glimmerT_35813-T1
Valid prediction for snap_scaffold_15-snap.627-T1
Valid prediction for GlimmerHMM_glimmerT_35805-T1
Valid prediction for snap_scaffold_15-snap.603-T1
Valid prediction for GlimmerHMM_glimmerT_35810-T1
Valid prediction for GlimmerHMM_glimmerT_35804-T1
Valid prediction for snap_scaffold_15-snap.614-T1
Valid prediction for snap_scaffold_15-snap.595-T1
Valid prediction for snap_scaffold_15-snap.618-T1
Valid prediction for Augustus_model.g23881.t1
Valid prediction for snap_scaffold_15-snap.626-T1
Valid prediction for Augustus_model.g23880.t1
Valid prediction for snap_scaffold_15-snap.598-T1
Valid prediction for snap_scaffold_15-snap.629-T1
Valid prediction for snap_scaffold_15-snap.590-T1
Valid prediction for pasa_asmbl_15917.p1
Valid prediction for snap_scaffold_15-snap.594-T1
Valid prediction for GlimmerHMM_glimmerT_35812-T1
Valid prediction for snap_scaffold_15-snap.592-T1
Valid prediction for snap_scaffold_15-snap.617-T1
Valid prediction for snap_scaffold_15-snap.607-T1
Valid prediction for Augustus_model.g23886.t1
Valid prediction for snap_scaffold_15-snap.601-T1
Valid prediction for snap_scaffold_15-snap.620-T1
Valid prediction for snap_scaffold_15-snap.623-T1
Valid prediction for snap_scaffold_15-snap.606-T1
Couldn't classify 56989, 57133
Sorry, prediction pasa_asmbl_15084.p1 fails validation.
(ATG)	 TA	54806-54960	GT	AGG
(TGA)	 AG	56258-56398	GT	AGG
(GTT)	 AG	56989-57133	GC	TCG
-recovered pasa_asmbl_15084.p1, initial, 54806, 54960
-recovered pasa_asmbl_15084.p1, internal, 56258, 56398
-recovered pasa_asmbl_15084.p1, internal, 56989, 57133

-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_15-snap.611-T1
Valid prediction for GlimmerHMM_glimmerT_35807-T1
Valid prediction for GlimmerHMM_glimmerT_35802-T1
Couldn't classify 92496, 93160
Sorry, prediction pasa_asmbl_14057.p1 fails validation.
(ATG)	 CG	91771-91789	GT	GGG
(GTG)	 AG	92496-93160	GA	CAG
-recovered pasa_asmbl_14057.p1, initial, 91771, 91789
Valid prediction for CodingQuarry_transcript_17949-T1
Valid prediction for snap_scaffold_15-snap.625-T1
Valid prediction for snap_scaffold_15-snap.600-T1
Valid prediction for Augustus_model.g23882.t1
Valid prediction for snap_scaffold_15-snap.609-T1
Valid prediction for Augustus_model.g23876.t1
Valid prediction for GlimmerHMM_glimmerT_35798-T1
Valid prediction for snap_scaffold_15-snap.624-T1
Valid prediction for GlimmerHMM_glimmerT_35801-T1
Valid prediction for GlimmerHMM_glimmerT_35797-T1
Valid prediction for HiQ_model.g23875.t1
Valid prediction for HiQ_model.g23878.t1
Valid prediction for Augustus_model.g23885.t1
Valid prediction for GlimmerHMM_glimmerT_35814-T1
Valid prediction for snap_scaffold_15-snap.602-T1
Valid prediction for Augustus_model.g23874.t1
Valid prediction for snap_scaffold_15-snap.599-T1
Valid prediction for snap_scaffold_15-snap.616-T1
Valid prediction for snap_scaffold_15-snap.589-T1
Valid prediction for pasa_asmbl_14062.p1
Valid prediction for CodingQuarry_transcript_17947-T1
Valid prediction for GlimmerHMM_glimmerT_35803-T1
Valid prediction for snap_scaffold_15-snap.610-T1
Valid prediction for snap_scaffold_15-snap.615-T1
Valid prediction for snap_scaffold_15-snap.604-T1
Valid prediction for Augustus_model.g23884.t1
Valid prediction for CodingQuarry_transcript_17946-T1
Valid prediction for snap_scaffold_15-snap.621-T1
Valid prediction for snap_scaffold_15-snap.622-T1
Valid prediction for snap_scaffold_15-snap.596-T1
Valid prediction for snap_scaffold_15-snap.619-T1
Valid prediction for snap_scaffold_15-snap.612-T1
Couldn't classify 129346, 129690
Sorry, prediction pasa_asmbl_14052.p2 fails validation.
(ATG)	 TC	129346-129690	TC	TGT
Valid prediction for GlimmerHMM_glimmerT_35800-T1
Valid prediction for snap_scaffold_15-snap.628-T1
Valid prediction for GlimmerHMM_glimmerT_35795-T1
Valid prediction for GlimmerHMM_glimmerT_35796-T1
Valid prediction for Augustus_model.g23883.t1
Valid prediction for snap_scaffold_15-snap.608-T1
Couldn't classify 93392, 93748
Sorry, prediction pasa_asmbl_14056.p1 fails validation.
(CTC)	 TA	93392-93748	GG	TCG
Valid prediction for snap_scaffold_15-snap.597-T1
Valid prediction for GlimmerHMM_glimmerT_35794-T1
Valid prediction for GlimmerHMM_glimmerT_35809-T1
Valid prediction for GlimmerHMM_glimmerT_35799-T1
Valid prediction for GlimmerHMM_glimmerT_35816-T1
Valid prediction for snap_scaffold_15-snap.593-T1
Valid prediction for Augustus_model.g23877.t1
Couldn't classify 135785, 135893
Sorry, prediction CodingQuarry_transcript_17945-T1 fails validation.
(ATG)	 TC	133350-133657	GT	GAG
(GGT)	 AG	135785-135893	TA	AGT
(CTT)	 AG	136072-136188	GT	AGG
(GTG)	 AG	136495-136609	GT	CCG
(GGC)	 AG	137391-137653	GT	CGG
(TAC)	 AG	139932-140001	GT	GAG
(TCC)	 AG	140081-140146	GT	AGG
(TTC)	 AG	142519-142535	AC	AAA
-recovered CodingQuarry_transcript_17945-T1, initial, 133350, 133657
-recovered CodingQuarry_transcript_17945-T1, terminal, 142519, 142535
-recovered CodingQuarry_transcript_17945-T1, internal, 136072, 136188
-recovered CodingQuarry_transcript_17945-T1, internal, 136495, 136609
-recovered CodingQuarry_transcript_17945-T1, internal, 137391, 137653
-recovered CodingQuarry_transcript_17945-T1, internal, 139932, 140001
-recovered CodingQuarry_transcript_17945-T1, internal, 140081, 140146

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11481, rend_intergenic: 2218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26208, rend_intergenic: 14846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38098, rend_intergenic: 30371  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42409, rend_intergenic: 40481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48605, rend_intergenic: 42819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51407, rend_intergenic: 51059  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53726, rend_intergenic: 51441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61149, rend_intergenic: 54806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73207, rend_intergenic: 61334  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77574, rend_intergenic: 77171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108697, rend_intergenic: 103474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112683, rend_intergenic: 110587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113369, rend_intergenic: 112888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120627, rend_intergenic: 114448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130302, rend_intergenic: 121557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137839, rend_intergenic: 132243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141681, rend_intergenic: 139268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 144830
-exon list size: 300


building trellis

0.3    
0.7    
1.0    
1.3    
1.7    
2.0    
2.3    
2.6    
3.0    
3.3    
3.6    
4.0    
4.3    
4.6    
5.0    
5.3    
5.6    
6.0    
6.3    
6.6    
7.0    
7.3    
7.6    
7.9    
8.3    
8.6    
8.9    
9.3    
9.6    
9.9    
10.3    
10.6    
10.9    
11.3    
11.6    
11.9    
12.3    
12.6    
12.9    
13.2    
13.6    
13.9    
14.2    
14.6    
14.9    
15.2    
15.6    
15.9    
16.2    
16.6    
16.9    
17.2    
17.5    
17.9    
18.2    
18.5    
18.9    
19.2    
19.5    
19.9    
20.2    
20.5    
20.9    
21.2    
21.5    
21.9    
22.2    
22.5    
22.8    
23.2    
23.5    
23.8    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.2    
26.5    
26.8    
27.2    
27.5    
27.8    
28.1    
28.5    
28.8    
29.1    
29.5    
29.8    
30.1    
30.5    
30.8    
31.1    
31.5    
31.8    
32.1    
32.5    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.8    
35.1    
35.4    
35.8    
36.1    
36.4    
36.8    
37.1    
37.4    
37.7    
38.1    
38.4    
38.7    
39.1    
39.4    
39.7    
40.1    
40.4    
40.7    
41.1    
41.4    
41.7    
42.1    
42.4    
42.7    
43.0    
43.4    
43.7    
44.0    
44.4    
44.7    
45.0    
45.4    
45.7    
46.0    
46.4    
46.7    
47.0    
47.4    
47.7    
48.0    
48.3    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.7    
52.0    
52.3    
52.6    
53.0    
53.3    
53.6    
54.0    
54.3    
54.6    
55.0    
55.3    
55.6    
56.0    
56.3    
56.6    
57.0    
57.3    
57.6    
57.9    
58.3    
58.6    
58.9    
59.3    
59.6    
59.9    
60.3    
60.6    
60.9    
61.3    
61.6    
61.9    
62.3    
62.6    
62.9    
63.2    
63.6    
63.9    
64.2    
64.6    
64.9    
65.2    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.5    
67.9    
68.2    
68.5    
68.9    
69.2    
69.5    
69.9    
70.2    
70.5    
70.9    
71.2    
71.5    
71.9    
72.2    
72.5    
72.8    
73.2    
73.5    
73.8    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.2    
76.5    
76.8    
77.2    
77.5    
77.8    
78.1    
78.5    
78.8    
79.1    
79.5    
79.8    
80.1    
80.5    
80.8    
81.1    
81.5    
81.8    
82.1    
82.5    
82.8    
83.1    
83.4    
83.8    
84.1    
84.4    
84.8    
85.1    
85.4    
85.8    
86.1    
86.4    
86.8    
87.1    
87.4    
87.7    
88.1    
88.4    
88.7    
89.1    
89.4    
89.7    
90.1    
90.4    
90.7    
91.1    
91.4    
91.7    
92.1    
92.4    
92.7    
93.0    
93.4    
93.7    
94.0    
94.4    
94.7    
95.0    
95.4    
95.7    
96.0    
96.4    
96.7    
97.0    
97.4    
97.7    
98.0    
98.3    
98.7    
99.0    
99.3    
99.7    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 11481, rend_intergenic: 2218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26208, rend_intergenic: 14846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38098, rend_intergenic: 30371  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42409, rend_intergenic: 40481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48605, rend_intergenic: 42819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51407, rend_intergenic: 51059  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53726, rend_intergenic: 51441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61149, rend_intergenic: 54806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73207, rend_intergenic: 61334  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77574, rend_intergenic: 77171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108697, rend_intergenic: 103474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112683, rend_intergenic: 110587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113369, rend_intergenic: 112888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120627, rend_intergenic: 114448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130302, rend_intergenic: 121557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137839, rend_intergenic: 132243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141681, rend_intergenic: 139268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support