-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_14147235-14312868

-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.g10693.t1
Valid prediction for GlimmerHMM_glimmerT_15910-T1
Valid prediction for HiQ_model.g10685.t1
Valid prediction for snap_scaffold_6-snap.2974-T1
Valid prediction for Augustus_model.g10676.t1
Valid prediction for snap_scaffold_6-snap.2963-T1
Couldn't classify 10744, 10902
Sorry, prediction pasa_asmbl_47588.p1 fails validation.
(CTT)	 GA	10744-10902	GT	ATG
(GTG)	 AG	11589-11726	GT	TGG
(AAA)	 AG	11882-11980	GT	CGG
(GTG)	 AG	12183-12301	GT	GCG
(GAC)	 AG	13085-13177	GT	AGG
(TGG)	 AG	14693-14821	GT	GGG
(GTT)	 AG	14922-15037	GT	AGG
(ACC)	 AG	15140-15224	GT	GGG
(GTA)	 AG	15542-15641	GT	AGG
(GAG)	 AG	15743-15911	GT	GGG
(GAA)	 AG	16011-16088	GT	AGG
(GTC)	 AG	16965-17079	GT	AGG
(GCC)	 AG	18480-18585	AT	AGA
-recovered pasa_asmbl_47588.p1, terminal, 18480, 18585
-recovered pasa_asmbl_47588.p1, internal, 11589, 11726
-recovered pasa_asmbl_47588.p1, internal, 11882, 11980
-recovered pasa_asmbl_47588.p1, internal, 12183, 12301
-recovered pasa_asmbl_47588.p1, internal, 13085, 13177
-recovered pasa_asmbl_47588.p1, internal, 14693, 14821
-recovered pasa_asmbl_47588.p1, internal, 14922, 15037
-recovered pasa_asmbl_47588.p1, internal, 15140, 15224
-recovered pasa_asmbl_47588.p1, internal, 15542, 15641
-recovered pasa_asmbl_47588.p1, internal, 15743, 15911
-recovered pasa_asmbl_47588.p1, internal, 16011, 16088
-recovered pasa_asmbl_47588.p1, internal, 16965, 17079
Valid prediction for snap_scaffold_6-snap.2949-T1
Valid prediction for snap_scaffold_6-snap.2970-T1
Couldn't classify 68282, 68371
Sorry, prediction pasa_asmbl_47595.p1 fails validation.
(CTC)	 CC	68282-68371	GT	TGG
(CTG)	 AG	68539-68653	GT	AGG
(AGC)	 AG	69111-69247	CG	AGC
-recovered pasa_asmbl_47595.p1, terminal, 69111, 69247
-recovered pasa_asmbl_47595.p1, internal, 68539, 68653
Valid prediction for GlimmerHMM_glimmerT_15881-T1
Couldn't classify 119501, 120457
Sorry, prediction pasa_asmbl_47598.p1 fails validation.
(AGC)	 GC	119501-120457	GG	AGG
Valid prediction for GlimmerHMM_glimmerT_15890-T1
Valid prediction for snap_scaffold_6-snap.2976-T1
Valid prediction for GlimmerHMM_glimmerT_15914-T1
Valid prediction for snap_scaffold_6-snap.2977-T1
Couldn't classify 42051, 42100
Sorry, prediction pasa_asmbl_47591.p1 fails validation.
(GGT)	 CA	42051-42100	GT	AGG
(AGG)	 AG	42200-42273	GT	TGG
(CCT)	 AG	42609-42693	GT	GAG
(TCA)	 AG	42950-43034	GT	AGG
(ATG)	 AG	43658-43771	GT	TGG
(ACT)	 AG	43981-44041	GT	CTG
(TCA)	 AG	44462-44585	GT	AAG
(GAA)	 AG	44792-44875	GT	ATG
(AGG)	 AG	45001-45113	GT	TGG
(GTA)	 AG	45250-45381	GT	CAG
(TTA)	 AG	45748-45847	GT	AGG
(GGC)	 AG	46084-46176	GT	GTG
(ATT)	 AG	46425-46509	GT	CTG
(AAC)	 AG	46624-46886	GT	AGG
(GTA)	 AG	47006-47100	GT	AGG
(GGA)	 AG	47332-47435	GT	TGG
(GTA)	 AG	47621-47694	GT	AGG
(GGT)	 AG	47776-47846	GT	GGG
(GAA)	 AG	48016-48104	GT	TGG
(ACT)	 AG	48284-48368	GT	CTG
(GCG)	 AG	49130-49305	GT	AGG
-recovered pasa_asmbl_47591.p1, initial, 43658, 43771
-recovered pasa_asmbl_47591.p1, terminal, 49130, 49305
-recovered pasa_asmbl_47591.p1, internal, 42200, 42273
-recovered pasa_asmbl_47591.p1, internal, 42609, 42693
-recovered pasa_asmbl_47591.p1, internal, 42950, 43034
-recovered pasa_asmbl_47591.p1, internal, 43658, 43771
-recovered pasa_asmbl_47591.p1, internal, 43981, 44041
-recovered pasa_asmbl_47591.p1, internal, 44462, 44585
-recovered pasa_asmbl_47591.p1, internal, 44792, 44875
-recovered pasa_asmbl_47591.p1, internal, 45001, 45113
-recovered pasa_asmbl_47591.p1, internal, 45250, 45381
-recovered pasa_asmbl_47591.p1, internal, 45748, 45847
-recovered pasa_asmbl_47591.p1, internal, 46084, 46176
-recovered pasa_asmbl_47591.p1, internal, 46425, 46509
-recovered pasa_asmbl_47591.p1, internal, 46624, 46886
-recovered pasa_asmbl_47591.p1, internal, 47006, 47100
-recovered pasa_asmbl_47591.p1, internal, 47332, 47435
-recovered pasa_asmbl_47591.p1, internal, 47621, 47694
-recovered pasa_asmbl_47591.p1, internal, 47776, 47846
-recovered pasa_asmbl_47591.p1, internal, 48016, 48104
-recovered pasa_asmbl_47591.p1, internal, 48284, 48368
-recovered pasa_asmbl_47591.p1, internal, 49130, 49305
Valid prediction for snap_scaffold_6-snap.2981-T1
Valid prediction for snap_scaffold_6-snap.2957-T1
Valid prediction for GlimmerHMM_glimmerT_15911-T1
Valid prediction for GlimmerHMM_glimmerT_15891-T1
Valid prediction for Augustus_model.g10682.t1
Valid prediction for Augustus_model.g10691.t1
Valid prediction for snap_scaffold_6-snap.2969-T1
Valid prediction for GlimmerHMM_glimmerT_15901-T1
Valid prediction for GlimmerHMM_glimmerT_15905-T1
Valid prediction for GlimmerHMM_glimmerT_15892-T1
Valid prediction for snap_scaffold_6-snap.2980-T1
Valid prediction for snap_scaffold_6-snap.2953-T1
Valid prediction for snap_scaffold_6-snap.2960-T1
Valid prediction for Augustus_model.g10686.t1
Valid prediction for GlimmerHMM_glimmerT_15887-T1
Couldn't classify 65104, 65151
Couldn't classify 67143, 67200
Sorry, prediction pasa_asmbl_47594.p1 fails validation.
(AAC)	 AT	65104-65151	GT	TGG
(AGT)	 AG	65709-65795	GT	AGG
(GGG)	 AG	66061-66093	GT	GGG
(GAG)	 AG	66507-66628	GT	AGG
(CTA)	 AG	66793-66882	GT	GCG
(GTT)	 AG	67143-67200	TC	TGT
-recovered pasa_asmbl_47594.p1, internal, 65709, 65795
-recovered pasa_asmbl_47594.p1, internal, 66061, 66093
-recovered pasa_asmbl_47594.p1, internal, 66507, 66628
-recovered pasa_asmbl_47594.p1, internal, 66793, 66882
Valid prediction for GlimmerHMM_glimmerT_15900-T1
Valid prediction for snap_scaffold_6-snap.2958-T1
Valid prediction for GlimmerHMM_glimmerT_15895-T1
Valid prediction for snap_scaffold_6-snap.2959-T1
Valid prediction for snap_scaffold_6-snap.2972-T1
Valid prediction for GlimmerHMM_glimmerT_15893-T1
Valid prediction for snap_scaffold_6-snap.2948-T1
Valid prediction for snap_scaffold_6-snap.2947-T1
Valid prediction for GlimmerHMM_glimmerT_15897-T1
Valid prediction for GlimmerHMM_glimmerT_15885-T1
Valid prediction for Augustus_model.g10688.t1
Valid prediction for HiQ_model.g10680.t1
Valid prediction for snap_scaffold_6-snap.2945-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 Augustus_model.g10692.t1
Valid prediction for snap_scaffold_6-snap.2956-T1
Valid prediction for Augustus_model.g10677.t1
Valid prediction for GlimmerHMM_glimmerT_15908-T1
Valid prediction for snap_scaffold_6-snap.2984-T1
Valid prediction for snap_scaffold_6-snap.2962-T1
Couldn't classify 35202, 36113
Sorry, prediction pasa_asmbl_49002.p1 fails validation.
(CCC)	 CA	35202-36113	GC	GAG
Valid prediction for GlimmerHMM_glimmerT_15896-T1
Valid prediction for snap_scaffold_6-snap.2978-T1
Valid prediction for GlimmerHMM_glimmerT_15902-T1
Valid prediction for snap_scaffold_6-snap.2971-T1
Valid prediction for snap_scaffold_6-snap.2979-T1
Valid prediction for Augustus_model.g10690.t1
Valid prediction for snap_scaffold_6-snap.2973-T1
Valid prediction for GlimmerHMM_glimmerT_15909-T1
Valid prediction for CodingQuarry_transcript_55330-T1
Valid prediction for snap_scaffold_6-snap.2975-T1
Valid prediction for GlimmerHMM_glimmerT_15904-T1
Valid prediction for snap_scaffold_6-snap.2961-T1
Valid prediction for GlimmerHMM_glimmerT_15916-T1
Valid prediction for snap_scaffold_6-snap.2982-T1
Valid prediction for GlimmerHMM_glimmerT_15903-T1
Couldn't classify 159611, 159827
Sorry, prediction pasa_asmbl_48988.p1 fails validation.
(TCG)	 CC	159611-159827	GT	TGG
(GGC)	 AG	159929-160371	GG	GAG
-recovered pasa_asmbl_48988.p1, terminal, 159929, 160371
Valid prediction for Augustus_model.g10679.t1
Valid prediction for GlimmerHMM_glimmerT_15888-T1
Valid prediction for Augustus_model.g10678.t1
Valid prediction for GlimmerHMM_glimmerT_15906-T1
Valid prediction for CodingQuarry_transcript_55331-T1
Valid prediction for snap_scaffold_6-snap.2952-T1
Valid prediction for snap_scaffold_6-snap.2967-T1
Valid prediction for GlimmerHMM_glimmerT_15899-T1
Valid prediction for GlimmerHMM_glimmerT_15912-T1
Valid prediction for GlimmerHMM_glimmerT_15886-T1
Valid prediction for HiQ_model.g10683.t1
Valid prediction for GlimmerHMM_glimmerT_15915-T1
Valid prediction for GlimmerHMM_glimmerT_15894-T1
Valid prediction for GlimmerHMM_glimmerT_15882-T1
Valid prediction for snap_scaffold_6-snap.2954-T1
Valid prediction for Augustus_model.g10694.t1
Valid prediction for snap_scaffold_6-snap.2950-T1
Couldn't classify 28940, 28993
Couldn't classify 34299, 34372
Sorry, prediction pasa_asmbl_49003.p1 fails validation.
(AGG)	 GC	28940-28993	GT	CTG
(GAG)	 AG	30249-30329	GT	AGG
(AGG)	 AG	31761-31876	GT	GAG
(GTC)	 AG	32162-32267	GT	AGG
(GTC)	 AG	33579-33609	GT	AGG
(TGA)	 AG	34299-34372	GA	ACG
-recovered pasa_asmbl_49003.p1, internal, 30249, 30329
-recovered pasa_asmbl_49003.p1, internal, 31761, 31876
-recovered pasa_asmbl_49003.p1, internal, 32162, 32267
-recovered pasa_asmbl_49003.p1, internal, 33579, 33609
Valid prediction for snap_scaffold_6-snap.2985-T1
Valid prediction for GlimmerHMM_glimmerT_15907-T1
Valid prediction for GlimmerHMM_glimmerT_15889-T1
Valid prediction for Augustus_model.g10681.t1
Valid prediction for snap_scaffold_6-snap.2951-T1
Valid prediction for GlimmerHMM_glimmerT_15898-T1
Valid prediction for Augustus_model.g10695.t1
Valid prediction for Augustus_model.g10689.t1
Valid prediction for snap_scaffold_6-snap.2955-T1
Valid prediction for Augustus_model.g10684.t1
Valid prediction for snap_scaffold_6-snap.2964-T1
Valid prediction for snap_scaffold_6-snap.2946-T1
Valid prediction for pasa_asmbl_48990.p1
Valid prediction for snap_scaffold_6-snap.2986-T1
Valid prediction for GlimmerHMM_glimmerT_15884-T1
Valid prediction for Augustus_model.g10687.t1
Valid prediction for snap_scaffold_6-snap.2968-T1
Valid prediction for snap_scaffold_6-snap.2966-T1
Valid prediction for GlimmerHMM_glimmerT_15883-T1
Valid prediction for GlimmerHMM_glimmerT_15913-T1
Valid prediction for snap_scaffold_6-snap.2965-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18585, rend_intergenic: 13052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79527, rend_intergenic: 75693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85771, rend_intergenic: 82819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126544, rend_intergenic: 123723  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130496, rend_intergenic: 127647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133878, rend_intergenic: 130792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137543, rend_intergenic: 133893  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152248, rend_intergenic: 137659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 165634
-exon list size: 379


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.6    
1.8    
2.1    
2.4    
2.6    
2.9    
3.1    
3.4    
3.7    
3.9    
4.2    
4.5    
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5.0    
5.2    
5.5    
5.8    
6.0    
6.3    
6.6    
6.8    
7.1    
7.3    
7.6    
7.9    
8.1    
8.4    
8.7    
8.9    
9.2    
9.4    
9.7    
10.0    
10.2    
10.5    
10.8    
11.0    
11.3    
11.5    
11.8    
12.1    
12.3    
12.6    
12.9    
13.1    
13.4    
13.6    
13.9    
14.2    
14.4    
14.7    
15.0    
15.2    
15.5    
15.7    
16.0    
16.3    
16.5    
16.8    
17.1    
17.3    
17.6    
17.8    
18.1    
18.4    
18.6    
18.9    
19.2    
19.4    
19.7    
19.9    
20.2    
20.5    
20.7    
21.0    
21.3    
21.5    
21.8    
22.0    
22.3    
22.6    
22.8    
23.1    
23.4    
23.6    
23.9    
24.1    
24.4    
24.7    
24.9    
25.2    
25.5    
25.7    
26.0    
26.2    
26.5    
26.8    
27.0    
27.3    
27.6    
27.8    
28.1    
28.3    
28.6    
28.9    
29.1    
29.4    
29.7    
29.9    
30.2    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.0    
32.3    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.6    
34.9    
35.2    
35.4    
35.7    
36.0    
36.2    
36.5    
36.7    
37.0    
37.3    
37.5    
37.8    
38.1    
38.3    
38.6    
38.8    
39.1    
39.4    
39.6    
39.9    
40.2    
40.4    
40.7    
40.9    
41.2    
41.5    
41.7    
42.0    
42.3    
42.5    
42.8    
43.0    
43.3    
43.6    
43.8    
44.1    
44.4    
44.6    
44.9    
45.1    
45.4    
45.7    
45.9    
46.2    
46.5    
46.7    
47.0    
47.2    
47.5    
47.8    
48.0    
48.3    
48.6    
48.8    
49.1    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
50.9    
51.2    
51.4    
51.7    
52.0    
52.2    
52.5    
52.8    
53.0    
53.3    
53.5    
53.8    
54.1    
54.3    
54.6    
54.9    
55.1    
55.4    
55.6    
55.9    
56.2    
56.4    
56.7    
57.0    
57.2    
57.5    
57.7    
58.0    
58.3    
58.5    
58.8    
59.1    
59.3    
59.6    
59.8    
60.1    
60.4    
60.6    
60.9    
61.2    
61.4    
61.7    
61.9    
62.2    
62.5    
62.7    
63.0    
63.3    
63.5    
63.8    
64.0    
64.3    
64.6    
64.8    
65.1    
65.4    
65.6    
65.9    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.7    
68.0    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.8    
70.1    
70.3    
70.6    
70.9    
71.1    
71.4    
71.7    
71.9    
72.2    
72.4    
72.7    
73.0    
73.2    
73.5    
73.8    
74.0    
74.3    
74.5    
74.8    
75.1    
75.3    
75.6    
75.9    
76.1    
76.4    
76.6    
76.9    
77.2    
77.4    
77.7    
78.0    
78.2    
78.5    
78.7    
79.0    
79.3    
79.5    
79.8    
80.1    
80.3    
80.6    
80.8    
81.1    
81.4    
81.6    
81.9    
82.2    
82.4    
82.7    
82.9    
83.2    
83.5    
83.7    
84.0    
84.3    
84.5    
84.8    
85.0    
85.3    
85.6    
85.8    
86.1    
86.4    
86.6    
86.9    
87.1    
87.4    
87.7    
87.9    
88.2    
88.5    
88.7    
89.0    
89.2    
89.5    
89.8    
90.0    
90.3    
90.6    
90.8    
91.1    
91.3    
91.6    
91.9    
92.1    
92.4    
92.7    
92.9    
93.2    
93.4    
93.7    
94.0    
94.2    
94.5    
94.8    
95.0    
95.3    
95.5    
95.8    
96.1    
96.3    
96.6    
96.9    
97.1    
97.4    
97.6    
97.9    
98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 18585, rend_intergenic: 13052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79527, rend_intergenic: 75693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85771, rend_intergenic: 82819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126544, rend_intergenic: 123723  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130496, rend_intergenic: 127647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133878, rend_intergenic: 130792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137543, rend_intergenic: 133893  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152248, rend_intergenic: 137659  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