-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1/scaffold_1_17485905-17602677

-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.g1715.t1
Valid prediction for snap_scaffold_1-snap.3180-T1
Valid prediction for Augustus_model.g1718.t1
Valid prediction for snap_scaffold_1-snap.3165-T1
Valid prediction for snap_scaffold_1-snap.3172-T1
Valid prediction for GlimmerHMM_glimmerT_2339-T1
Valid prediction for GlimmerHMM_glimmerT_2341-T1
Valid prediction for snap_scaffold_1-snap.3174-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_1-snap.3175-T1
Valid prediction for snap_scaffold_1-snap.3178-T1
Valid prediction for snap_scaffold_1-snap.3182-T1
Valid prediction for snap_scaffold_1-snap.3179-T1
Valid prediction for GlimmerHMM_glimmerT_2332-T1
Valid prediction for Augustus_model.g1720.t1
Valid prediction for snap_scaffold_1-snap.3186-T1
Valid prediction for snap_scaffold_1-snap.3166-T1
Valid prediction for snap_scaffold_1-snap.3169-T1
Valid prediction for GlimmerHMM_glimmerT_2337-T1
Valid prediction for Augustus_model.g1721.t1
Valid prediction for GlimmerHMM_glimmerT_2338-T1
Valid prediction for snap_scaffold_1-snap.3187-T1
Valid prediction for snap_scaffold_1-snap.3171-T1
Valid prediction for GlimmerHMM_glimmerT_2335-T1
Valid prediction for GlimmerHMM_glimmerT_2333-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.g1724.t1
Couldn't classify 18251, 18757
Sorry, prediction pasa_asmbl_1040.p1 fails validation.
(GAT)	 CT	18251-18757	AA	GAA
Valid prediction for GlimmerHMM_glimmerT_2330-T1
Valid prediction for GlimmerHMM_glimmerT_2343-T1
Valid prediction for Augustus_model.g1714.t1
Valid prediction for snap_scaffold_1-snap.3177-T1
Valid prediction for GlimmerHMM_glimmerT_2342-T1
Valid prediction for snap_scaffold_1-snap.3181-T1
Valid prediction for GlimmerHMM_glimmerT_2331-T1
Valid prediction for GlimmerHMM_glimmerT_2334-T1
Couldn't classify 7240, 7623
Sorry, prediction pasa_asmbl_1043.p1 fails validation.
(ATG)	 AG	4051-4184	GT	AGG
(GAA)	 AG	4987-5242	GT	TGG
(GCC)	 AG	7240-7623	AC	GCA
-recovered pasa_asmbl_1043.p1, initial, 4051, 4184
-recovered pasa_asmbl_1043.p1, internal, 4051, 4184
-recovered pasa_asmbl_1043.p1, internal, 4987, 5242
Valid prediction for Augustus_model.g1716.t1
Valid prediction for snap_scaffold_1-snap.3176-T1
Valid prediction for snap_scaffold_1-snap.3184-T1
Valid prediction for GlimmerHMM_glimmerT_2328-T1
Valid prediction for GlimmerHMM_glimmerT_2340-T1
Valid prediction for Augustus_model.g1725.t1
Valid prediction for GlimmerHMM_glimmerT_2336-T1
Valid prediction for GlimmerHMM_glimmerT_2329-T1
Valid prediction for snap_scaffold_1-snap.3185-T1
Couldn't classify 10642, 10857
Sorry, prediction pasa_asmbl_1042.p2 fails validation.
(TTC)	 AG	10642-10857	GT	AGG
(CTG)	 AG	11050-11166	CC	GAC
-recovered pasa_asmbl_1042.p2, terminal, 11050, 11166
-recovered pasa_asmbl_1042.p2, internal, 10642, 10857
Couldn't classify 42087, 42267
Couldn't classify 44673, 44780
Sorry, prediction pasa_asmbl_1378.p1 fails validation.
(CAG)	 AC	42087-42267	GT	GGG
(GCT)	 AG	42953-43027	GT	AGG
(ACA)	 AG	43969-44056	GT	CAG
(GCG)	 AG	44406-44493	GT	GGG
(GGC)	 AG	44673-44780	CC	CAC
-recovered pasa_asmbl_1378.p1, internal, 42953, 43027
-recovered pasa_asmbl_1378.p1, internal, 43969, 44056
-recovered pasa_asmbl_1378.p1, internal, 44406, 44493
Couldn't classify 15880, 16759
Couldn't classify 18089, 18172
Sorry, prediction pasa_asmbl_1289.p1 fails validation.
(GAG)	 AG	15880-16759	GT	AGG
(GAG)	 AG	17035-17156	GT	AGG
(TCA)	 AG	18089-18172	CC	CCC
-recovered pasa_asmbl_1289.p1, internal, 15880, 16759
-recovered pasa_asmbl_1289.p1, internal, 17035, 17156
Valid prediction for Augustus_model.g1722.t1
Valid prediction for Augustus_model.g1723.t1
Valid prediction for GlimmerHMM_glimmerT_2344-T1
Valid prediction for Augustus_model.g1713.t1
Valid prediction for snap_scaffold_1-snap.3173-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_1-snap.3167-T1
Valid prediction for GlimmerHMM_glimmerT_2345-T1
Valid prediction for Augustus_model.g1719.t1
Valid prediction for snap_scaffold_1-snap.3183-T1
Valid prediction for snap_scaffold_1-snap.3170-T1
Valid prediction for snap_scaffold_1-snap.3164-T1
Valid prediction for snap_scaffold_1-snap.3168-T1
Couldn't classify 15430, 15750
Sorry, prediction pasa_asmbl_1041.p1 fails validation.
(ATG)	 CG	15430-15750	TC	GGT
Valid prediction for Augustus_model.g1717.t1
Valid prediction for GlimmerHMM_glimmerT_2346-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5613, rend_intergenic: 3171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22502, rend_intergenic: 12455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27379, rend_intergenic: 24103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36945, rend_intergenic: 27890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53299, rend_intergenic: 38268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56479, rend_intergenic: 53547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89703, rend_intergenic: 64698  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96421, rend_intergenic: 91653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116712, rend_intergenic: 105611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 116773
-exon list size: 246


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.8    
3.2    
3.6    
4.0    
4.4    
4.8    
5.2    
5.6    
6.0    
6.5    
6.9    
7.3    
7.7    
8.1    
8.5    
8.9    
9.3    
9.7    
10.1    
10.5    
10.9    
11.3    
11.7    
12.1    
12.5    
12.9    
13.3    
13.7    
14.1    
14.5    
14.9    
15.3    
15.7    
16.1    
16.5    
16.9    
17.3    
17.7    
18.1    
18.5    
19.0    
19.4    
19.8    
20.2    
20.6    
21.0    
21.4    
21.8    
22.2    
22.6    
23.0    
23.4    
23.8    
24.2    
24.6    
25.0    
25.4    
25.8    
26.2    
26.6    
27.0    
27.4    
27.8    
28.2    
28.6    
29.0    
29.4    
29.8    
30.2    
30.6    
31.0    
31.5    
31.9    
32.3    
32.7    
33.1    
33.5    
33.9    
34.3    
34.7    
35.1    
35.5    
35.9    
36.3    
36.7    
37.1    
37.5    
37.9    
38.3    
38.7    
39.1    
39.5    
39.9    
40.3    
40.7    
41.1    
41.5    
41.9    
42.3    
42.7    
43.1    
43.5    
44.0    
44.4    
44.8    
45.2    
45.6    
46.0    
46.4    
46.8    
47.2    
47.6    
48.0    
48.4    
48.8    
49.2    
49.6    
50.0    
50.4    
50.8    
51.2    
51.6    
52.0    
52.4    
52.8    
53.2    
53.6    
54.0    
54.4    
54.8    
55.2    
55.6    
56.0    
56.5    
56.9    
57.3    
57.7    
58.1    
58.5    
58.9    
59.3    
59.7    
60.1    
60.5    
60.9    
61.3    
61.7    
62.1    
62.5    
62.9    
63.3    
63.7    
64.1    
64.5    
64.9    
65.3    
65.7    
66.1    
66.5    
66.9    
67.3    
67.7    
68.1    
68.5    
69.0    
69.4    
69.8    
70.2    
70.6    
71.0    
71.4    
71.8    
72.2    
72.6    
73.0    
73.4    
73.8    
74.2    
74.6    
75.0    
75.4    
75.8    
76.2    
76.6    
77.0    
77.4    
77.8    
78.2    
78.6    
79.0    
79.4    
79.8    
80.2    
80.6    
81.0    
81.5    
81.9    
82.3    
82.7    
83.1    
83.5    
83.9    
84.3    
84.7    
85.1    
85.5    
85.9    
86.3    
86.7    
87.1    
87.5    
87.9    
88.3    
88.7    
89.1    
89.5    
89.9    
90.3    
90.7    
91.1    
91.5    
91.9    
92.3    
92.7    
93.1    
93.5    
94.0    
94.4    
94.8    
95.2    
95.6    
96.0    
96.4    
96.8    
97.2    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 18 predictions from path traversal
Error with prediction: snap lend_intergenic: 5613, rend_intergenic: 3171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22502, rend_intergenic: 12455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27379, rend_intergenic: 24103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36945, rend_intergenic: 27890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53299, rend_intergenic: 38268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56479, rend_intergenic: 53547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89703, rend_intergenic: 64698  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96421, rend_intergenic: 91653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116712, rend_intergenic: 105611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support