-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_14311347-14448885

-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 CodingQuarry_transcript_55338-T1
Valid prediction for snap_scaffold_6-snap.3004-T1
Valid prediction for Augustus_model.g10697.t1
Valid prediction for snap_scaffold_6-snap.2992-T1
Valid prediction for snap_scaffold_6-snap.2996-T1
Valid prediction for Augustus_model.g10700.t1
Valid prediction for snap_scaffold_6-snap.3019-T1
Couldn't classify 64596, 64669
Sorry, prediction pasa_asmbl_47599.p3 fails validation.
(ACT)	 AG	64596-64669	GT	AGG
(GTG)	 AG	65028-65367	GA	GAG
-recovered pasa_asmbl_47599.p3, terminal, 65028, 65367
-recovered pasa_asmbl_47599.p3, internal, 64596, 64669
Valid prediction for CodingQuarry_transcript_55339-T1
Valid prediction for CodingQuarry_transcript_55336-T1
Valid prediction for snap_scaffold_6-snap.2990-T1
Valid prediction for snap_scaffold_6-snap.2997-T1
Couldn't classify 114760, 114841
Sorry, prediction pasa_asmbl_47614.p1 fails validation.
(ACC)	 TC	114760-114841	GT	AGG
(AGC)	 AG	115049-115139	GT	AGG
(CGT)	 AG	115735-115852	GT	AGG
(AAC)	 AG	116036-116150	GT	TGG
(GAG)	 AG	116305-116404	GT	CAG
(GTG)	 AG	116617-116767	AG	GAA
-recovered pasa_asmbl_47614.p1, terminal, 116617, 116767
-recovered pasa_asmbl_47614.p1, internal, 115049, 115139
-recovered pasa_asmbl_47614.p1, internal, 115735, 115852
-recovered pasa_asmbl_47614.p1, internal, 116036, 116150
-recovered pasa_asmbl_47614.p1, internal, 116305, 116404
Valid prediction for GlimmerHMM_glimmerT_15921-T1
Valid prediction for GlimmerHMM_glimmerT_15933-T1
Valid prediction for pasa_asmbl_47612.p1
Valid prediction for pasa_asmbl_47606.p1
Valid prediction for GlimmerHMM_glimmerT_15919-T1
Valid prediction for GlimmerHMM_glimmerT_15926-T1
Valid prediction for GlimmerHMM_glimmerT_15939-T1
Valid prediction for GlimmerHMM_glimmerT_15940-T1
Valid prediction for HiQ_model.g10708.t1
Valid prediction for GlimmerHMM_glimmerT_15930-T1
Valid prediction for GlimmerHMM_glimmerT_15929-T1
Valid prediction for snap_scaffold_6-snap.3002-T1
Valid prediction for CodingQuarry_transcript_55340-T1
Valid prediction for snap_scaffold_6-snap.2999-T1
Valid prediction for GlimmerHMM_glimmerT_15918-T1
Valid prediction for snap_scaffold_6-snap.3013-T1
Valid prediction for Augustus_model.g10699.t1
Valid prediction for GlimmerHMM_glimmerT_15936-T1
Valid prediction for pasa_asmbl_47603.p1
Valid prediction for snap_scaffold_6-snap.3007-T1
Valid prediction for HiQ_model.g10703.t1
Valid prediction for Augustus_model.g10712.t1
Valid prediction for Augustus_model.g10702.t1
Valid prediction for snap_scaffold_6-snap.3015-T1
Valid prediction for Augustus_model.g10701.t1
Valid prediction for GlimmerHMM_glimmerT_15928-T1
Couldn't classify 92254, 92475
Couldn't classify 95318, 95372
Sorry, prediction pasa_asmbl_47608.p1 fails validation.
(CCG)	 CT	92254-92475	GT	GGG
(GAC)	 AG	94869-94987	GT	TGG
(GGC)	 AG	95318-95372	AA	GGA
-recovered pasa_asmbl_47608.p1, internal, 94869, 94987
Valid prediction for snap_scaffold_6-snap.3005-T1
Valid prediction for Augustus_model.g10696.t1
Valid prediction for GlimmerHMM_glimmerT_15932-T1
Valid prediction for snap_scaffold_6-snap.3016-T1
Valid prediction for Augustus_model.g10698.t1
Valid prediction for snap_scaffold_6-snap.3009-T1
Valid prediction for HiQ_model.g10705.t1
Couldn't classify 112679, 113013
Couldn't classify 113379, 113461
Sorry, prediction pasa_asmbl_47613.p1 fails validation.
(CTC)	 TC	112679-113013	GT	AGG
(AAA)	 AG	113227-113267	GT	AGG
(TCA)	 AG	113379-113461	CT	AGC
-recovered pasa_asmbl_47613.p1, internal, 113227, 113267
Valid prediction for GlimmerHMM_glimmerT_15917-T1
Valid prediction for Augustus_model.g10706.t1
Valid prediction for snap_scaffold_6-snap.2998-T1
Valid prediction for snap_scaffold_6-snap.3017-T1
Valid prediction for Augustus_model.g10710.t1
Valid prediction for Augustus_model.g10707.t1
Valid prediction for GlimmerHMM_glimmerT_15938-T1
Valid prediction for GlimmerHMM_glimmerT_15923-T1
Valid prediction for Augustus_model.g10711.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.g10704.t1
Valid prediction for snap_scaffold_6-snap.3006-T1
Valid prediction for snap_scaffold_6-snap.3001-T1
Valid prediction for GlimmerHMM_glimmerT_15937-T1
Valid prediction for snap_scaffold_6-snap.2995-T1
Valid prediction for snap_scaffold_6-snap.3014-T1
Valid prediction for snap_scaffold_6-snap.3018-T1
Valid prediction for GlimmerHMM_glimmerT_15925-T1
Valid prediction for snap_scaffold_6-snap.3003-T1
Valid prediction for snap_scaffold_6-snap.3010-T1
Valid prediction for snap_scaffold_6-snap.3011-T1
Valid prediction for snap_scaffold_6-snap.3012-T1
Valid prediction for Augustus_model.g10709.t1
Valid prediction for snap_scaffold_6-snap.2987-T1
Valid prediction for GlimmerHMM_glimmerT_15927-T1
Valid prediction for GlimmerHMM_glimmerT_15935-T1
Valid prediction for GlimmerHMM_glimmerT_15934-T1
Valid prediction for GlimmerHMM_glimmerT_15924-T1
Valid prediction for CodingQuarry_transcript_55337-T1
Valid prediction for snap_scaffold_6-snap.2993-T1
Valid prediction for snap_scaffold_6-snap.2994-T1
Valid prediction for snap_scaffold_6-snap.3000-T1
Valid prediction for GlimmerHMM_glimmerT_15922-T1
Valid prediction for GlimmerHMM_glimmerT_15920-T1
Valid prediction for snap_scaffold_6-snap.2988-T1
Valid prediction for snap_scaffold_6-snap.3008-T1
Valid prediction for snap_scaffold_6-snap.2991-T1
Valid prediction for pasa_asmbl_49005.p1
Valid prediction for GlimmerHMM_glimmerT_15931-T1
Valid prediction for snap_scaffold_6-snap.2989-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21645, rend_intergenic: 19032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24578, rend_intergenic: 23656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35248, rend_intergenic: 27981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40042, rend_intergenic: 35667  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52390, rend_intergenic: 44039  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67318, rend_intergenic: 61125  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92622, rend_intergenic: 90283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99875, rend_intergenic: 93190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135528, rend_intergenic: 131911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 137539
-exon list size: 297


building trellis

0.3    
0.7    
1.0    
1.3    
1.7    
2.0    
2.3    
2.7    
3.0    
3.3    
3.7    
4.0    
4.3    
4.7    
5.0    
5.4    
5.7    
6.0    
6.4    
6.7    
7.0    
7.4    
7.7    
8.0    
8.4    
8.7    
9.0    
9.4    
9.7    
10.0    
10.4    
10.7    
11.0    
11.4    
11.7    
12.0    
12.4    
12.7    
13.0    
13.4    
13.7    
14.0    
14.4    
14.7    
15.1    
15.4    
15.7    
16.1    
16.4    
16.7    
17.1    
17.4    
17.7    
18.1    
18.4    
18.7    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.1    
22.4    
22.7    
23.1    
23.4    
23.7    
24.1    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.4    
26.8    
27.1    
27.4    
27.8    
28.1    
28.4    
28.8    
29.1    
29.4    
29.8    
30.1    
30.4    
30.8    
31.1    
31.4    
31.8    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.8    
35.1    
35.5    
35.8    
36.1    
36.5    
36.8    
37.1    
37.5    
37.8    
38.1    
38.5    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.5    
41.8    
42.1    
42.5    
42.8    
43.1    
43.5    
43.8    
44.1    
44.5    
44.8    
45.2    
45.5    
45.8    
46.2    
46.5    
46.8    
47.2    
47.5    
47.8    
48.2    
48.5    
48.8    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.2    
51.5    
51.8    
52.2    
52.5    
52.8    
53.2    
53.5    
53.8    
54.2    
54.5    
54.8    
55.2    
55.5    
55.9    
56.2    
56.5    
56.9    
57.2    
57.5    
57.9    
58.2    
58.5    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.5    
61.9    
62.2    
62.5    
62.9    
63.2    
63.5    
63.9    
64.2    
64.5    
64.9    
65.2    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.2    
68.6    
68.9    
69.2    
69.6    
69.9    
70.2    
70.6    
70.9    
71.2    
71.6    
71.9    
72.2    
72.6    
72.9    
73.2    
73.6    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
75.9    
76.3    
76.6    
76.9    
77.3    
77.6    
77.9    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.3    
81.6    
81.9    
82.3    
82.6    
82.9    
83.3    
83.6    
83.9    
84.3    
84.6    
84.9    
85.3    
85.6    
86.0    
86.3    
86.6    
87.0    
87.3    
87.6    
88.0    
88.3    
88.6    
89.0    
89.3    
89.6    
90.0    
90.3    
90.6    
91.0    
91.3    
91.6    
92.0    
92.3    
92.6    
93.0    
93.3    
93.6    
94.0    
94.3    
94.6    
95.0    
95.3    
95.7    
96.0    
96.3    
96.7    
97.0    
97.3    
97.7    
98.0    
98.3    
98.7    
99.0    
99.3    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 21645, rend_intergenic: 19032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24578, rend_intergenic: 23656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35248, rend_intergenic: 27981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40042, rend_intergenic: 35667  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52390, rend_intergenic: 44039  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67318, rend_intergenic: 61125  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92622, rend_intergenic: 90283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99875, rend_intergenic: 93190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135528, rend_intergenic: 131911  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