-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_884540-1139216

-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.185-T1
Valid prediction for snap_scaffold_8-snap.192-T1
Valid prediction for snap_scaffold_8-snap.177-T1
Valid prediction for GlimmerHMM_glimmerT_19226-T1
Valid prediction for snap_scaffold_8-snap.178-T1
Valid prediction for Augustus_model.g12826.t1
Valid prediction for snap_scaffold_8-snap.171-T1
Valid prediction for snap_scaffold_8-snap.174-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g12821.t1
Valid prediction for GlimmerHMM_glimmerT_19198-T1
Valid prediction for snap_scaffold_8-snap.187-T1
Valid prediction for snap_scaffold_8-snap.203-T1
Valid prediction for GlimmerHMM_glimmerT_19211-T1
Valid prediction for snap_scaffold_8-snap.188-T1
Valid prediction for GlimmerHMM_glimmerT_19203-T1
Couldn't classify 218518, 218558
Couldn't classify 218599, 218659
Sorry, prediction CodingQuarry_transcript_59591-T1 fails validation.
(ATG)	 AG	218518-218558	GA	GAG
(GAG)	 GT	218599-218659	AG	AGA
Valid prediction for snap_scaffold_8-snap.207-T1
Valid prediction for GlimmerHMM_glimmerT_19201-T1
Valid prediction for snap_scaffold_8-snap.176-T1
Couldn't classify 229820, 229860
Sorry, prediction pasa_asmbl_52678.p1 fails validation.
(ATG)	 TC	228609-228696	GT	CAG
(CCA)	 AG	228968-229093	GT	AGG
(ACT)	 AG	229447-229572	GT	CCG
(GTC)	 AG	229820-229860	GG	GGG
-recovered pasa_asmbl_52678.p1, initial, 228609, 228696
-recovered pasa_asmbl_52678.p1, internal, 228968, 229093
-recovered pasa_asmbl_52678.p1, internal, 229447, 229572
Valid prediction for snap_scaffold_8-snap.204-T1
Valid prediction for snap_scaffold_8-snap.190-T1
Valid prediction for GlimmerHMM_glimmerT_19208-T1
Valid prediction for snap_scaffold_8-snap.181-T1
Valid prediction for GlimmerHMM_glimmerT_19202-T1
Valid prediction for GlimmerHMM_glimmerT_19204-T1
Valid prediction for snap_scaffold_8-snap.182-T1
Couldn't classify 242171, 242281
Sorry, prediction pasa_asmbl_52683.p1 fails validation.
(AGG)	 GC	242171-242281	GT	AGG
(TTG)	 AG	242827-243019	GT	CGG
(GGA)	 AG	243125-243238	GT	CAG
(TCT)	 AG	245129-245240	GT	AAG
(CTG)	 AG	245326-245390	GT	TGG
(GGG)	 AG	246260-246347	GT	AGG
(ACA)	 AG	246522-246660	GT	AGG
(CTC)	 AG	248310-248351	CC	GAC
-recovered pasa_asmbl_52683.p1, terminal, 248310, 248351
-recovered pasa_asmbl_52683.p1, internal, 242827, 243019
-recovered pasa_asmbl_52683.p1, internal, 243125, 243238
-recovered pasa_asmbl_52683.p1, internal, 245129, 245240
-recovered pasa_asmbl_52683.p1, internal, 245326, 245390
-recovered pasa_asmbl_52683.p1, internal, 246260, 246347
-recovered pasa_asmbl_52683.p1, internal, 246522, 246660
Valid prediction for GlimmerHMM_glimmerT_19220-T1
Valid prediction for GlimmerHMM_glimmerT_19224-T1
Valid prediction for Augustus_model.g12824.t1
Couldn't classify 239393, 239554
Couldn't classify 239709, 239933
Sorry, prediction pasa_asmbl_53618.p1 fails validation.
(TAC)	 GC	239393-239554	GT	AGG
(CGC)	 AG	239709-239933	GG	TGG
Couldn't classify 233802, 233832
Couldn't classify 237581, 237735
Sorry, prediction pasa_asmbl_53642.p1 fails validation.
(CAC)	 AA	233802-233832	GT	AGG
(GTG)	 AG	234527-234652	GT	TAG
(GTC)	 AG	234965-235173	GT	AGG
(GTG)	 AG	235375-235456	GT	AGG
(GTA)	 AG	235681-235786	GT	GGG
(CTT)	 AG	236145-236346	GT	AGG
(GTG)	 AG	236814-237003	GT	AGG
(TGA)	 AG	237167-237298	GT	AGG
(GGA)	 AG	237581-237735	GT	GTG
-recovered pasa_asmbl_53642.p1, internal, 234527, 234652
-recovered pasa_asmbl_53642.p1, internal, 234965, 235173
-recovered pasa_asmbl_53642.p1, internal, 235375, 235456
-recovered pasa_asmbl_53642.p1, internal, 235681, 235786
-recovered pasa_asmbl_53642.p1, internal, 236145, 236346
-recovered pasa_asmbl_53642.p1, internal, 236814, 237003
-recovered pasa_asmbl_53642.p1, internal, 237167, 237298
-recovered pasa_asmbl_53642.p1, internal, 237581, 237735
Valid prediction for snap_scaffold_8-snap.173-T1
Valid prediction for GlimmerHMM_glimmerT_19193-T1
Valid prediction for GlimmerHMM_glimmerT_19196-T1
Valid prediction for Augustus_model.g12823.t1
Valid prediction for GlimmerHMM_glimmerT_19217-T1
Valid prediction for GlimmerHMM_glimmerT_19212-T1
Valid prediction for GlimmerHMM_glimmerT_19223-T1
Valid prediction for GlimmerHMM_glimmerT_19200-T1
Valid prediction for GlimmerHMM_glimmerT_19195-T1
Valid prediction for GlimmerHMM_glimmerT_19206-T1
Valid prediction for GlimmerHMM_glimmerT_19205-T1
Valid prediction for GlimmerHMM_glimmerT_19209-T1
Valid prediction for snap_scaffold_8-snap.184-T1
Couldn't classify 230495, 230720
Couldn't classify 230920, 231074
Sorry, prediction pasa_asmbl_52679.p1 fails validation.
(GAG)	 CA	230495-230720	GT	CGG
(GTG)	 AG	230920-231074	GG	AGG
Valid prediction for Augustus_model.g12830.t1
Valid prediction for snap_scaffold_8-snap.197-T1
Valid prediction for GlimmerHMM_glimmerT_19216-T1
Valid prediction for Augustus_model.g12829.t1
Valid prediction for GlimmerHMM_glimmerT_19197-T1
Valid prediction for snap_scaffold_8-snap.180-T1
Valid prediction for snap_scaffold_8-snap.199-T1
Valid prediction for GlimmerHMM_glimmerT_19221-T1
Valid prediction for snap_scaffold_8-snap.195-T1
Valid prediction for snap_scaffold_8-snap.201-T1
Valid prediction for Augustus_model.g12825.t1
Valid prediction for GlimmerHMM_glimmerT_19192-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_8-snap.210-T1
Valid prediction for snap_scaffold_8-snap.175-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g12818.t1
Valid prediction for snap_scaffold_8-snap.200-T1
Valid prediction for Augustus_model.g12819.t1
Valid prediction for snap_scaffold_8-snap.202-T1
Valid prediction for snap_scaffold_8-snap.194-T1
Valid prediction for Augustus_model.g12828.t1
Valid prediction for GlimmerHMM_glimmerT_19225-T1
Valid prediction for GlimmerHMM_glimmerT_19210-T1
Valid prediction for snap_scaffold_8-snap.198-T1
Valid prediction for GlimmerHMM_glimmerT_19214-T1
Valid prediction for snap_scaffold_8-snap.196-T1
Valid prediction for Augustus_model.g12827.t1
Valid prediction for GlimmerHMM_glimmerT_19227-T1
Valid prediction for snap_scaffold_8-snap.189-T1
Valid prediction for GlimmerHMM_glimmerT_19199-T1
Valid prediction for Augustus_model.g12820.t1
Valid prediction for snap_scaffold_8-snap.179-T1
Valid prediction for snap_scaffold_8-snap.208-T1
Valid prediction for snap_scaffold_8-snap.183-T1
Valid prediction for snap_scaffold_8-snap.211-T1
Valid prediction for GlimmerHMM_glimmerT_19207-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.206-T1
Valid prediction for GlimmerHMM_glimmerT_19215-T1
Valid prediction for snap_scaffold_8-snap.172-T1
Valid prediction for GlimmerHMM_glimmerT_19191-T1
Valid prediction for GlimmerHMM_glimmerT_19222-T1
Valid prediction for snap_scaffold_8-snap.191-T1
Valid prediction for GlimmerHMM_glimmerT_19213-T1
Valid prediction for GlimmerHMM_glimmerT_19219-T1
Valid prediction for snap_scaffold_8-snap.193-T1
Valid prediction for snap_scaffold_8-snap.209-T1
Valid prediction for snap_scaffold_8-snap.205-T1
Valid prediction for GlimmerHMM_glimmerT_19218-T1
Valid prediction for GlimmerHMM_glimmerT_19194-T1
Valid prediction for snap_scaffold_8-snap.186-T1
Valid prediction for Augustus_model.g12822.t1
Couldn't classify 54193, 54522
Sorry, prediction pasa_asmbl_52677.p1 fails validation.
(ATG)	 AC	54193-54522	CA	TTC
Valid prediction for snap_scaffold_8-snap.212-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5987, rend_intergenic: 5220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16336, rend_intergenic: 11236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18398, rend_intergenic: 16453  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34828, rend_intergenic: 21204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52713, rend_intergenic: 36208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63483, rend_intergenic: 58308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65583, rend_intergenic: 65397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67957, rend_intergenic: 65595  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76204, rend_intergenic: 70476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80889, rend_intergenic: 79537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89107, rend_intergenic: 82681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97509, rend_intergenic: 92825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102539, rend_intergenic: 97804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108152, rend_intergenic: 107459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112178, rend_intergenic: 109101  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120214, rend_intergenic: 112481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131015, rend_intergenic: 122384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158328, rend_intergenic: 131715  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177350, rend_intergenic: 160610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182800, rend_intergenic: 180269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 253032, rend_intergenic: 183596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 254677
-exon list size: 438


building trellis

0.2    
0.5    
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0.9    
1.1    
1.4    
1.6    
1.8    
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2.5    
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3.0    
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11.1    
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11.8    
12.0    
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13.4    
13.6    
13.9    
14.1    
14.3    
14.5    
14.8    
15.0    
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15.7    
15.9    
16.1    
16.4    
16.6    
16.8    
17.0    
17.3    
17.5    
17.7    
18.0    
18.2    
18.4    
18.6    
18.9    
19.1    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
20.9    
21.1    
21.4    
21.6    
21.8    
22.0    
22.3    
22.5    
22.7    
23.0    
23.2    
23.4    
23.6    
23.9    
24.1    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
25.9    
26.1    
26.4    
26.6    
26.8    
27.0    
27.3    
27.5    
27.7    
28.0    
28.2    
28.4    
28.6    
28.9    
29.1    
29.3    
29.5    
29.8    
30.0    
30.2    
30.5    
30.7    
30.9    
31.1    
31.4    
31.6    
31.8    
32.0    
32.3    
32.5    
32.7    
33.0    
33.2    
33.4    
33.6    
33.9    
34.1    
34.3    
34.5    
34.8    
35.0    
35.2    
35.5    
35.7    
35.9    
36.1    
36.4    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
38.0    
38.2    
38.4    
38.6    
38.9    
39.1    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
40.9    
41.1    
41.4    
41.6    
41.8    
42.0    
42.3    
42.5    
42.7    
43.0    
43.2    
43.4    
43.6    
43.9    
44.1    
44.3    
44.5    
44.8    
45.0    
45.2    
45.5    
45.7    
45.9    
46.1    
46.4    
46.6    
46.8    
47.0    
47.3    
47.5    
47.7    
48.0    
48.2    
48.4    
48.6    
48.9    
49.1    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
50.9    
51.1    
51.4    
51.6    
51.8    
52.0    
52.3    
52.5    
52.7    
53.0    
53.2    
53.4    
53.6    
53.9    
54.1    
54.3    
54.5    
54.8    
55.0    
55.2    
55.5    
55.7    
55.9    
56.1    
56.4    
56.6    
56.8    
57.0    
57.3    
57.5    
57.7    
58.0    
58.2    
58.4    
58.6    
58.9    
59.1    
59.3    
59.5    
59.8    
60.0    
60.2    
60.5    
60.7    
60.9    
61.1    
61.4    
61.6    
61.8    
62.0    
62.3    
62.5    
62.7    
63.0    
63.2    
63.4    
63.6    
63.9    
64.1    
64.3    
64.5    
64.8    
65.0    
65.2    
65.5    
65.7    
65.9    
66.1    
66.4    
66.6    
66.8    
67.0    
67.3    
67.5    
67.7    
68.0    
68.2    
68.4    
68.6    
68.9    
69.1    
69.3    
69.5    
69.8    
70.0    
70.2    
70.5    
70.7    
70.9    
71.1    
71.4    
71.6    
71.8    
72.0    
72.3    
72.5    
72.7    
73.0    
73.2    
73.4    
73.6    
73.9    
74.1    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
75.9    
76.1    
76.4    
76.6    
76.8    
77.0    
77.3    
77.5    
77.7    
78.0    
78.2    
78.4    
78.6    
78.9    
79.1    
79.3    
79.5    
79.8    
80.0    
80.2    
80.5    
80.7    
80.9    
81.1    
81.4    
81.6    
81.8    
82.0    
82.3    
82.5    
82.7    
83.0    
83.2    
83.4    
83.6    
83.9    
84.1    
84.3    
84.5    
84.8    
85.0    
85.2    
85.5    
85.7    
85.9    
86.1    
86.4    
86.6    
86.8    
87.0    
87.3    
87.5    
87.7    
88.0    
88.2    
88.4    
88.6    
88.9    
89.1    
89.3    
89.5    
89.8    
90.0    
90.2    
90.5    
90.7    
90.9    
91.1    
91.4    
91.6    
91.8    
92.0    
92.3    
92.5    
92.7    
93.0    
93.2    
93.4    
93.6    
93.9    
94.1    
94.3    
94.5    
94.8    
95.0    
95.2    
95.5    
95.7    
95.9    
96.1    
96.4    
96.6    
96.8    
97.0    
97.3    
97.5    
97.7    
98.0    
98.2    
98.4    
98.6    
98.9    
99.1    
99.3    
99.5    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 5987, rend_intergenic: 5220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16336, rend_intergenic: 11236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18398, rend_intergenic: 16453  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34828, rend_intergenic: 21204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52713, rend_intergenic: 36208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63483, rend_intergenic: 58308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65583, rend_intergenic: 65397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67957, rend_intergenic: 65595  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76204, rend_intergenic: 70476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80889, rend_intergenic: 79537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89107, rend_intergenic: 82681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97509, rend_intergenic: 92825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102539, rend_intergenic: 97804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108152, rend_intergenic: 107459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112178, rend_intergenic: 109101  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120214, rend_intergenic: 112481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131015, rend_intergenic: 122384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158328, rend_intergenic: 131715  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177350, rend_intergenic: 160610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182800, rend_intergenic: 180269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 253032, rend_intergenic: 183596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support