-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_17296260-17476779

-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_6-snap.3696-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 78748, 79653
Sorry, prediction pasa_asmbl_47744.p1 fails validation.
(CAA)	 CA	78748-79653	GA	AAG
Valid prediction for snap_scaffold_6-snap.3669-T1
Valid prediction for Augustus_model.g10997.t1
Valid prediction for GlimmerHMM_glimmerT_16401-T1
Valid prediction for GlimmerHMM_glimmerT_16402-T1
Valid prediction for snap_scaffold_6-snap.3676-T1
Valid prediction for GlimmerHMM_glimmerT_16415-T1
Valid prediction for snap_scaffold_6-snap.3689-T1
Valid prediction for Augustus_model.g10987.t1
Valid prediction for CodingQuarry_transcript_55405-T1
Valid prediction for Augustus_model.g10991.t1
Valid prediction for snap_scaffold_6-snap.3672-T1
Valid prediction for Augustus_model.g10993.t1
Valid prediction for GlimmerHMM_glimmerT_16422-T1
Valid prediction for snap_scaffold_6-snap.3681-T1
Valid prediction for snap_scaffold_6-snap.3683-T1
Valid prediction for HiQ_model.g10994.t1
Valid prediction for Augustus_model.g11000.t1
Valid prediction for GlimmerHMM_glimmerT_16403-T1
Valid prediction for CodingQuarry_transcript_55408-T1
Valid prediction for GlimmerHMM_glimmerT_16394-T1
Valid prediction for GlimmerHMM_glimmerT_16393-T1
Valid prediction for snap_scaffold_6-snap.3694-T1
Valid prediction for GlimmerHMM_glimmerT_16419-T1
Valid prediction for HiQ_model.g10988.t1
Valid prediction for GlimmerHMM_glimmerT_16412-T1
Couldn't classify 144067, 144144
Sorry, prediction pasa_asmbl_47753.p1 fails validation.
(CCG)	 CA	144067-144144	GT	AGG
(GAC)	 AG	144861-144986	GT	AGG
(GTG)	 AG	146230-146275	GT	AAG
(ATA)	 AG	146394-146530	GT	AGG
(AGG)	 AG	146839-146924	GT	AGG
(GGA)	 AG	147218-147290	GT	AGG
(TTA)	 AG	147614-147729	GT	ATG
(TGA)	 AG	149194-149326	GT	AGG
(CTG)	 AG	150042-150189	GT	TGG
(ATC)	 AG	150935-151065	GT	TGG
(GGA)	 AG	151249-151334	GT	AGG
(GTA)	 AG	151625-151754	GT	GGG
(CAC)	 AG	152193-152335	GT	GGG
(ATA)	 AG	152686-152878	GT	AGG
(CAA)	 AG	153177-153270	GT	AGG
(ATT)	 AG	153392-153408	GA	GAG
-recovered pasa_asmbl_47753.p1, terminal, 151249, 151334
-recovered pasa_asmbl_47753.p1, terminal, 153392, 153408
-recovered pasa_asmbl_47753.p1, internal, 144861, 144986
-recovered pasa_asmbl_47753.p1, internal, 146230, 146275
-recovered pasa_asmbl_47753.p1, internal, 146394, 146530
-recovered pasa_asmbl_47753.p1, internal, 146839, 146924
-recovered pasa_asmbl_47753.p1, internal, 147218, 147290
-recovered pasa_asmbl_47753.p1, internal, 147614, 147729
-recovered pasa_asmbl_47753.p1, internal, 149194, 149326
-recovered pasa_asmbl_47753.p1, internal, 150042, 150189
-recovered pasa_asmbl_47753.p1, internal, 150935, 151065
-recovered pasa_asmbl_47753.p1, internal, 151249, 151334
-recovered pasa_asmbl_47753.p1, internal, 151625, 151754
-recovered pasa_asmbl_47753.p1, internal, 152193, 152335
-recovered pasa_asmbl_47753.p1, internal, 152686, 152878
-recovered pasa_asmbl_47753.p1, internal, 153177, 153270
Valid prediction for GlimmerHMM_glimmerT_16407-T1
Valid prediction for GlimmerHMM_glimmerT_16406-T1
Valid prediction for GlimmerHMM_glimmerT_16416-T1
Couldn't classify 177896, 177952
Sorry, prediction pasa_asmbl_47755.p1 fails validation.
(ATG)	 CC	176329-177663	GT	AGG
(TTT)	 AG	177896-177952	AG	CCA
-recovered pasa_asmbl_47755.p1, initial, 176329, 177663
Valid prediction for pasa_asmbl_47745.p1
Valid prediction for snap_scaffold_6-snap.3675-T1
Valid prediction for GlimmerHMM_glimmerT_16398-T1
Valid prediction for GlimmerHMM_glimmerT_16405-T1
Valid prediction for snap_scaffold_6-snap.3691-T1
Valid prediction for Augustus_model.g10989.t1
Valid prediction for GlimmerHMM_glimmerT_16413-T1
Valid prediction for snap_scaffold_6-snap.3680-T1
Valid prediction for Augustus_model.g10992.t1
Valid prediction for snap_scaffold_6-snap.3678-T1
Valid prediction for snap_scaffold_6-snap.3697-T1
Valid prediction for snap_scaffold_6-snap.3701-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.3679-T1
Valid prediction for snap_scaffold_6-snap.3684-T1
Valid prediction for CodingQuarry_transcript_55407-T1
Valid prediction for CodingQuarry_transcript_55404-T1
Valid prediction for GlimmerHMM_glimmerT_16404-T1
Valid prediction for snap_scaffold_6-snap.3704-T1
Valid prediction for snap_scaffold_6-snap.3674-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_6-snap.3690-T1
Valid prediction for snap_scaffold_6-snap.3703-T1
Valid prediction for Augustus_model.g10996.t1
Valid prediction for GlimmerHMM_glimmerT_16417-T1
Valid prediction for snap_scaffold_6-snap.3692-T1
Valid prediction for GlimmerHMM_glimmerT_16411-T1
Valid prediction for GlimmerHMM_glimmerT_16414-T1
Valid prediction for Augustus_model.g10995.t1
Valid prediction for snap_scaffold_6-snap.3685-T1
Valid prediction for snap_scaffold_6-snap.3673-T1
Valid prediction for snap_scaffold_6-snap.3670-T1
Valid prediction for GlimmerHMM_glimmerT_16392-T1
Valid prediction for Augustus_model.g10985.t1
Valid prediction for snap_scaffold_6-snap.3682-T1
Sorry, intron length (7) is less than minimum required (10)
Couldn't classify 162406, 162642
Couldn't classify 164945, 165091
Sorry, prediction pasa_asmbl_49188.p2 fails validation.
(TCT)	 TC	162406-162642	GT	AGG
(GGG)	 AG	164945-165091	TT	AGT
Valid prediction for snap_scaffold_6-snap.3699-T1
Valid prediction for Augustus_model.g10999.t1
Couldn't classify 168269, 168430
Couldn't classify 168902, 169078
Sorry, prediction pasa_asmbl_49391.p2 fails validation.
(GTG)	 CT	168269-168430	GT	CTG
(AAC)	 AG	168902-169078	GT	TGG
-recovered pasa_asmbl_49391.p2, internal, 168902, 169078
Valid prediction for snap_scaffold_6-snap.3687-T1
Valid prediction for GlimmerHMM_glimmerT_16396-T1
Valid prediction for GlimmerHMM_glimmerT_16408-T1
Valid prediction for snap_scaffold_6-snap.3686-T1
Valid prediction for GlimmerHMM_glimmerT_16400-T1
Valid prediction for snap_scaffold_6-snap.3688-T1
Valid prediction for GlimmerHMM_glimmerT_16397-T1
Valid prediction for GlimmerHMM_glimmerT_16410-T1
Valid prediction for GlimmerHMM_glimmerT_16420-T1
Valid prediction for snap_scaffold_6-snap.3695-T1
Valid prediction for GlimmerHMM_glimmerT_16421-T1
Valid prediction for GlimmerHMM_glimmerT_16423-T1
Valid prediction for snap_scaffold_6-snap.3667-T1
Valid prediction for GlimmerHMM_glimmerT_16409-T1
Valid prediction for snap_scaffold_6-snap.3677-T1
Valid prediction for snap_scaffold_6-snap.3700-T1
Valid prediction for GlimmerHMM_glimmerT_16395-T1
Valid prediction for snap_scaffold_6-snap.3702-T1
Valid prediction for snap_scaffold_6-snap.3671-T1
Valid prediction for GlimmerHMM_glimmerT_16399-T1
Valid prediction for snap_scaffold_6-snap.3693-T1
Valid prediction for GlimmerHMM_glimmerT_16418-T1
Valid prediction for Augustus_model.g10990.t1
Valid prediction for Augustus_model.g10998.t1
Valid prediction for Augustus_model.g10986.t1
Valid prediction for snap_scaffold_6-snap.3698-T1
Valid prediction for snap_scaffold_6-snap.3668-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 27682, rend_intergenic: 9515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46683, rend_intergenic: 34640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71543, rend_intergenic: 47392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76581, rend_intergenic: 71970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88724, rend_intergenic: 77684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92382, rend_intergenic: 92134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96570, rend_intergenic: 93528  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108420, rend_intergenic: 100616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116641, rend_intergenic: 110751  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119185, rend_intergenic: 118842  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124042, rend_intergenic: 119917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136540, rend_intergenic: 134023  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154268, rend_intergenic: 146407  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 180520
-exon list size: 319


building trellis

0.3    
0.6    
0.9    
1.2    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.4    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.3    
14.6    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
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    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.7    
29.0    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.5    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.4    
85.7    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.6    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.8    
99.1    
99.4    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 27682, rend_intergenic: 9515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46683, rend_intergenic: 34640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71543, rend_intergenic: 47392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76581, rend_intergenic: 71970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88724, rend_intergenic: 77684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92382, rend_intergenic: 92134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96570, rend_intergenic: 93528  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108420, rend_intergenic: 100616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116641, rend_intergenic: 110751  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119185, rend_intergenic: 118842  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124042, rend_intergenic: 119917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136540, rend_intergenic: 134023  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154268, rend_intergenic: 146407  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