-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_9698649-9867222

-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_57905-T1
Valid prediction for Augustus_model.g38312.t1
Valid prediction for GlimmerHMM_glimmerT_57909-T1
Valid prediction for GlimmerHMM_glimmerT_57892-T1
Valid prediction for GlimmerHMM_glimmerT_57907-T1
Valid prediction for snap_scaffold_27-snap.2250-T1
Valid prediction for snap_scaffold_27-snap.2229-T1
Valid prediction for HiQ_model.g38314.t1
Valid prediction for Augustus_model.g38315.t1
Valid prediction for snap_scaffold_27-snap.2231-T1
Valid prediction for GlimmerHMM_glimmerT_57896-T1
Valid prediction for snap_scaffold_27-snap.2249-T1
Valid prediction for snap_scaffold_27-snap.2224-T1
Valid prediction for GlimmerHMM_glimmerT_57899-T1
Valid prediction for snap_scaffold_27-snap.2242-T1
Valid prediction for snap_scaffold_27-snap.2257-T1
Valid prediction for Augustus_model.g38320.t1
Valid prediction for GlimmerHMM_glimmerT_57888-T1
Valid prediction for snap_scaffold_27-snap.2243-T1
Valid prediction for snap_scaffold_27-snap.2252-T1
Valid prediction for snap_scaffold_27-snap.2232-T1
Valid prediction for GlimmerHMM_glimmerT_57910-T1
Valid prediction for GlimmerHMM_glimmerT_57890-T1
Valid prediction for pasa_asmbl_36525.p1
Valid prediction for snap_scaffold_27-snap.2223-T1
Valid prediction for snap_scaffold_27-snap.2255-T1
Valid prediction for HiQ_model.g38319.t1
Valid prediction for CodingQuarry_transcript_41973-T1
Couldn't classify 165750, 165880
Sorry, prediction pasa_asmbl_36531.p1 fails validation.
(ATG)	 TC	163652-163682	GT	AGG
(GTT)	 AG	163988-164161	GT	TGG
(GTA)	 AG	164351-164487	GT	GGG
(GGT)	 AG	164644-164817	GT	AGG
(GTG)	 AG	165030-165186	GT	GGG
(AGT)	 AG	165750-165880	GG	CAG
-recovered pasa_asmbl_36531.p1, initial, 163652, 163682
-recovered pasa_asmbl_36531.p1, internal, 163988, 164161
-recovered pasa_asmbl_36531.p1, internal, 164351, 164487
-recovered pasa_asmbl_36531.p1, internal, 164644, 164817
-recovered pasa_asmbl_36531.p1, internal, 165030, 165186
Valid prediction for snap_scaffold_27-snap.2248-T1
Couldn't classify 152755, 152844
Sorry, prediction pasa_asmbl_36527.p1 fails validation.
(ATG)	 AT	146749-146818	GT	TGG
(GTA)	 AG	148075-148250	GT	CGG
(ATA)	 AG	148548-148761	GT	AGG
(AGT)	 AG	148878-149007	GT	GGG
(CTG)	 AG	151841-151952	GT	CTG
(GGC)	 AG	152755-152844	AA	TCA
-recovered pasa_asmbl_36527.p1, initial, 146749, 146818
-recovered pasa_asmbl_36527.p1, internal, 148075, 148250
-recovered pasa_asmbl_36527.p1, internal, 148548, 148761
-recovered pasa_asmbl_36527.p1, internal, 148878, 149007
-recovered pasa_asmbl_36527.p1, internal, 151841, 151952
Valid prediction for snap_scaffold_27-snap.2245-T1
Valid prediction for GlimmerHMM_glimmerT_57893-T1
Valid prediction for snap_scaffold_27-snap.2259-T1
Valid prediction for snap_scaffold_27-snap.2240-T1
Couldn't classify 161166, 161319
Couldn't classify 162273, 162464
Sorry, prediction pasa_asmbl_36530.p1 fails validation.
(GTG)	 CA	161166-161319	GT	GAG
(GCG)	 AG	161911-162170	GT	AGG
(GTA)	 AG	162273-162464	AC	CGA
-recovered pasa_asmbl_36530.p1, internal, 161911, 162170
Valid prediction for snap_scaffold_27-snap.2236-T1
Valid prediction for snap_scaffold_27-snap.2239-T1
Valid prediction for snap_scaffold_27-snap.2237-T1
Valid prediction for snap_scaffold_27-snap.2226-T1
Valid prediction for GlimmerHMM_glimmerT_57902-T1
Valid prediction for GlimmerHMM_glimmerT_57897-T1
Valid prediction for GlimmerHMM_glimmerT_57885-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_27-snap.2225-T1
Valid prediction for GlimmerHMM_glimmerT_57889-T1
Valid prediction for GlimmerHMM_glimmerT_57908-T1
Valid prediction for snap_scaffold_27-snap.2251-T1
Valid prediction for snap_scaffold_27-snap.2235-T1
Valid prediction for Augustus_model.g38311.t1
Valid prediction for snap_scaffold_27-snap.2238-T1
Valid prediction for snap_scaffold_27-snap.2253-T1
Valid prediction for GlimmerHMM_glimmerT_57904-T1
Valid prediction for snap_scaffold_27-snap.2254-T1
Valid prediction for GlimmerHMM_glimmerT_57894-T1
Valid prediction for HiQ_model.g38316.t1
Valid prediction for snap_scaffold_27-snap.2247-T1
Valid prediction for GlimmerHMM_glimmerT_57903-T1
Valid prediction for snap_scaffold_27-snap.2246-T1
Valid prediction for snap_scaffold_27-snap.2244-T1
Valid prediction for snap_scaffold_27-snap.2256-T1
Valid prediction for GlimmerHMM_glimmerT_57901-T1
Valid prediction for snap_scaffold_27-snap.2233-T1
Valid prediction for Augustus_model.g38310.t1
Valid prediction for snap_scaffold_27-snap.2234-T1
Valid prediction for snap_scaffold_27-snap.2258-T1
Sorry, intron length (7) is less than minimum required (10)
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_57887-T1
Valid prediction for Augustus_model.g38313.t1
Valid prediction for snap_scaffold_27-snap.2227-T1
Valid prediction for GlimmerHMM_glimmerT_57891-T1
Valid prediction for snap_scaffold_27-snap.2241-T1
Valid prediction for Augustus_model.g38317.t1
Couldn't classify 23097, 23279
Couldn't classify 24090, 24335
Sorry, prediction pasa_asmbl_37154.p1 fails validation.
(AAC)	 CA	23097-23279	GT	AGG
(ACA)	 AG	24090-24335	AT	ACA
Valid prediction for snap_scaffold_27-snap.2230-T1
Valid prediction for GlimmerHMM_glimmerT_57906-T1
Valid prediction for Augustus_model.g38318.t1
Valid prediction for GlimmerHMM_glimmerT_57900-T1
Valid prediction for snap_scaffold_27-snap.2222-T1
Valid prediction for GlimmerHMM_glimmerT_57886-T1
Couldn't classify 64577, 64640
Sorry, prediction pasa_asmbl_37151.p1 fails validation.
(ATG)	 CC	61135-61185	GT	TGG
(ATC)	 AG	62626-62824	GT	GGG
(TGC)	 AG	63085-63240	GT	GAG
(ACG)	 AG	63683-63805	GT	CTG
(CCA)	 AG	64085-64214	GT	AAG
(AGA)	 AG	64577-64640	TC	TCT
-recovered pasa_asmbl_37151.p1, initial, 61135, 61185
-recovered pasa_asmbl_37151.p1, internal, 62626, 62824
-recovered pasa_asmbl_37151.p1, internal, 63085, 63240
-recovered pasa_asmbl_37151.p1, internal, 63683, 63805
-recovered pasa_asmbl_37151.p1, internal, 64085, 64214
Valid prediction for GlimmerHMM_glimmerT_57898-T1
Valid prediction for snap_scaffold_27-snap.2228-T1
Valid prediction for GlimmerHMM_glimmerT_57895-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6304, rend_intergenic: 3403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33754, rend_intergenic: 25533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38816, rend_intergenic: 36439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64742, rend_intergenic: 50793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80579, rend_intergenic: 68289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91419, rend_intergenic: 85944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99286, rend_intergenic: 96134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106180, rend_intergenic: 103494  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119450, rend_intergenic: 107028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126947, rend_intergenic: 119580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129399, rend_intergenic: 127757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138254, rend_intergenic: 129877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144426, rend_intergenic: 142484  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153009, rend_intergenic: 150405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 168574
-exon list size: 324


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
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9.8    
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10.4    
10.7    
11.0    
11.3    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.5    
32.8    
33.1    
33.4    
33.7    
34.0    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
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    
52.5    
52.8    
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53.4    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
66.0    
66.3    
66.6    
66.9    
67.2    
67.5    
67.8    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
69.9    
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70.6    
70.9    
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72.1    
72.4    
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73.0    
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73.9    
74.2    
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75.2    
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76.1    
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77.0    
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80.7    
81.0    
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81.6    
81.9    
82.2    
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83.1    
83.4    
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84.0    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.3    
93.6    
93.9    
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95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 6304, rend_intergenic: 3403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33754, rend_intergenic: 25533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38816, rend_intergenic: 36439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64742, rend_intergenic: 50793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80579, rend_intergenic: 68289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91419, rend_intergenic: 85944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99286, rend_intergenic: 96134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106180, rend_intergenic: 103494  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119450, rend_intergenic: 107028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126947, rend_intergenic: 119580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129399, rend_intergenic: 127757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138254, rend_intergenic: 129877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144426, rend_intergenic: 142484  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153009, rend_intergenic: 150405  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