-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_17332320-17489074

-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.g1708.t1
Valid prediction for GlimmerHMM_glimmerT_2317-T1
Valid prediction for snap_scaffold_1-snap.3136-T1
Valid prediction for snap_scaffold_1-snap.3137-T1
Valid prediction for Augustus_model.g1712.t1
Valid prediction for snap_scaffold_1-snap.3133-T1
Valid prediction for snap_scaffold_1-snap.3156-T1
Valid prediction for snap_scaffold_1-snap.3125-T1
Valid prediction for snap_scaffold_1-snap.3132-T1
Valid prediction for GlimmerHMM_glimmerT_2311-T1
Valid prediction for GlimmerHMM_glimmerT_2318-T1
Valid prediction for snap_scaffold_1-snap.3152-T1
Valid prediction for snap_scaffold_1-snap.3147-T1
Valid prediction for snap_scaffold_1-snap.3161-T1
Valid prediction for Augustus_model.g1706.t1
Valid prediction for Augustus_model.g1700.t1
Valid prediction for snap_scaffold_1-snap.3145-T1
Valid prediction for snap_scaffold_1-snap.3163-T1
Valid prediction for GlimmerHMM_glimmerT_2313-T1
Valid prediction for snap_scaffold_1-snap.3138-T1
Valid prediction for snap_scaffold_1-snap.3158-T1
Valid prediction for snap_scaffold_1-snap.3122-T1
Valid prediction for snap_scaffold_1-snap.3153-T1
Valid prediction for snap_scaffold_1-snap.3159-T1
Valid prediction for snap_scaffold_1-snap.3140-T1
Valid prediction for Augustus_model.g1702.t1
Valid prediction for Augustus_model.g1704.t1
Valid prediction for GlimmerHMM_glimmerT_2324-T1
Valid prediction for snap_scaffold_1-snap.3134-T1
Valid prediction for GlimmerHMM_glimmerT_2321-T1
Valid prediction for snap_scaffold_1-snap.3130-T1
Valid prediction for snap_scaffold_1-snap.3142-T1
Valid prediction for GlimmerHMM_glimmerT_2326-T1
Valid prediction for snap_scaffold_1-snap.3148-T1
Valid prediction for snap_scaffold_1-snap.3155-T1
Valid prediction for GlimmerHMM_glimmerT_2322-T1
Valid prediction for GlimmerHMM_glimmerT_2320-T1
Valid prediction for GlimmerHMM_glimmerT_2314-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_1-snap.3149-T1
Valid prediction for GlimmerHMM_glimmerT_2325-T1
Valid prediction for snap_scaffold_1-snap.3154-T1
Valid prediction for snap_scaffold_1-snap.3127-T1
Couldn't classify 148708, 148764
Sorry, prediction GlimmerHMM_glimmerT_2308-T1 fails validation.
(ATG)	 TG	147951-148064	GT	ACG
(NNN)	 AN	148708-148764	GT	TGG
(GTG)	 AG	149458-150393	GT	AGG
(GGG)	 AG	155143-155217	AG	AGA
-recovered GlimmerHMM_glimmerT_2308-T1, initial, 147951, 148064
-recovered GlimmerHMM_glimmerT_2308-T1, terminal, 155143, 155217
-recovered GlimmerHMM_glimmerT_2308-T1, internal, 149458, 150393
Valid prediction for Augustus_model.g1696.t1
Valid prediction for GlimmerHMM_glimmerT_2319-T1
Valid prediction for Augustus_model.g1699.t1
Valid prediction for snap_scaffold_1-snap.3135-T1
Valid prediction for snap_scaffold_1-snap.3143-T1
Valid prediction for snap_scaffold_1-snap.3150-T1
Valid prediction for snap_scaffold_1-snap.3123-T1
Valid prediction for snap_scaffold_1-snap.3139-T1
Valid prediction for snap_scaffold_1-snap.3162-T1
Valid prediction for snap_scaffold_1-snap.3157-T1
Valid prediction for Augustus_model.g1698.t1
Valid prediction for Augustus_model.g1711.t1
Valid prediction for snap_scaffold_1-snap.3126-T1
Valid prediction for snap_scaffold_1-snap.3151-T1
Valid prediction for Augustus_model.g1703.t1
Valid prediction for Augustus_model.g1695.t1
Valid prediction for snap_scaffold_1-snap.3141-T1
Valid prediction for snap_scaffold_1-snap.3124-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_2310-T1
Valid prediction for Augustus_model.g1709.t1
Valid prediction for GlimmerHMM_glimmerT_2316-T1
Valid prediction for Augustus_model.g1701.t1
Valid prediction for GlimmerHMM_glimmerT_2312-T1
Valid prediction for snap_scaffold_1-snap.3129-T1
Valid prediction for snap_scaffold_1-snap.3146-T1
Valid prediction for GlimmerHMM_glimmerT_2323-T1
Valid prediction for Augustus_model.g1710.t1
Valid prediction for Augustus_model.g1705.t1
Valid prediction for GlimmerHMM_glimmerT_2315-T1
Valid prediction for snap_scaffold_1-snap.3131-T1
Valid prediction for snap_scaffold_1-snap.3160-T1
Valid prediction for Augustus_model.g1697.t1
Valid prediction for GlimmerHMM_glimmerT_2309-T1
Valid prediction for snap_scaffold_1-snap.3144-T1
Valid prediction for Augustus_model.g1707.t1
Valid prediction for snap_scaffold_1-snap.3128-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8922, rend_intergenic: 6190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11837, rend_intergenic: 9720  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39086, rend_intergenic: 30513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49341, rend_intergenic: 41804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54532, rend_intergenic: 53221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66075, rend_intergenic: 61814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68195, rend_intergenic: 66635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74903, rend_intergenic: 72179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117535, rend_intergenic: 113988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123555, rend_intergenic: 118480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133144, rend_intergenic: 129062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148188, rend_intergenic: 145654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152205, rend_intergenic: 148702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153957, rend_intergenic: 152716  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156755
-exon list size: 247


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    
6.4    
6.8    
7.2    
7.6    
8.0    
8.4    
8.8    
9.2    
9.6    
10.0    
10.4    
10.8    
11.2    
11.6    
12.0    
12.4    
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    
18.9    
19.3    
19.7    
20.1    
20.5    
20.9    
21.3    
21.7    
22.1    
22.5    
22.9    
23.3    
23.7    
24.1    
24.5    
24.9    
25.3    
25.7    
26.1    
26.5    
26.9    
27.3    
27.7    
28.1    
28.5    
28.9    
29.3    
29.7    
30.1    
30.5    
30.9    
31.3    
31.7    
32.1    
32.5    
32.9    
33.3    
33.7    
34.1    
34.5    
34.9    
35.3    
35.7    
36.1    
36.5    
36.9    
37.3    
37.8    
38.2    
38.6    
39.0    
39.4    
39.8    
40.2    
40.6    
41.0    
41.4    
41.8    
42.2    
42.6    
43.0    
43.4    
43.8    
44.2    
44.6    
45.0    
45.4    
45.8    
46.2    
46.6    
47.0    
47.4    
47.8    
48.2    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.8    
52.2    
52.6    
53.0    
53.4    
53.8    
54.2    
54.6    
55.0    
55.4    
55.8    
56.2    
56.6    
57.0    
57.4    
57.8    
58.2    
58.6    
59.0    
59.4    
59.8    
60.2    
60.6    
61.0    
61.4    
61.8    
62.2    
62.7    
63.1    
63.5    
63.9    
64.3    
64.7    
65.1    
65.5    
65.9    
66.3    
66.7    
67.1    
67.5    
67.9    
68.3    
68.7    
69.1    
69.5    
69.9    
70.3    
70.7    
71.1    
71.5    
71.9    
72.3    
72.7    
73.1    
73.5    
73.9    
74.3    
74.7    
75.1    
75.5    
75.9    
76.3    
76.7    
77.1    
77.5    
77.9    
78.3    
78.7    
79.1    
79.5    
79.9    
80.3    
80.7    
81.1    
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    
87.6    
88.0    
88.4    
88.8    
89.2    
89.6    
90.0    
90.4    
90.8    
91.2    
91.6    
92.0    
92.4    
92.8    
93.2    
93.6    
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 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 8922, rend_intergenic: 6190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11837, rend_intergenic: 9720  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39086, rend_intergenic: 30513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49341, rend_intergenic: 41804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54532, rend_intergenic: 53221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66075, rend_intergenic: 61814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68195, rend_intergenic: 66635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74903, rend_intergenic: 72179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117535, rend_intergenic: 113988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123555, rend_intergenic: 118480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133144, rend_intergenic: 129062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148188, rend_intergenic: 145654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152205, rend_intergenic: 148702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153957, rend_intergenic: 152716  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support