-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_16878510-17010411

-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 GlimmerHMM_glimmerT_30891-T1
Valid prediction for snap_scaffold_12-snap.3254-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.3255-T1
Valid prediction for Augustus_model.g20500.t1
Valid prediction for Augustus_model.g20484.t1
Valid prediction for Augustus_model.g20490.t1
Valid prediction for GlimmerHMM_glimmerT_30902-T1
Valid prediction for snap_scaffold_12-snap.3229-T1
Valid prediction for Augustus_model.g20492.t1
Valid prediction for snap_scaffold_12-snap.3245-T1
Valid prediction for GlimmerHMM_glimmerT_30899-T1
Valid prediction for snap_scaffold_12-snap.3241-T1
Valid prediction for Augustus_model.g20480.t1
Valid prediction for Augustus_model.g20482.t1
Valid prediction for GlimmerHMM_glimmerT_30906-T1
Valid prediction for GlimmerHMM_glimmerT_30905-T1
Valid prediction for snap_scaffold_12-snap.3236-T1
Valid prediction for Augustus_model.g20483.t1
Valid prediction for GlimmerHMM_glimmerT_30903-T1
Valid prediction for GlimmerHMM_glimmerT_30889-T1
Valid prediction for snap_scaffold_12-snap.3244-T1
Valid prediction for GlimmerHMM_glimmerT_30896-T1
Valid prediction for GlimmerHMM_glimmerT_30880-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.3238-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g20502.t1
Valid prediction for Augustus_model.g20501.t1
Valid prediction for GlimmerHMM_glimmerT_30882-T1
Valid prediction for GlimmerHMM_glimmerT_30879-T1
Valid prediction for GlimmerHMM_glimmerT_30907-T1
Valid prediction for Augustus_model.g20497.t1
Valid prediction for snap_scaffold_12-snap.3249-T1
Valid prediction for snap_scaffold_12-snap.3256-T1
Valid prediction for GlimmerHMM_glimmerT_30887-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.g20487.t1
Valid prediction for GlimmerHMM_glimmerT_30900-T1
Valid prediction for snap_scaffold_12-snap.3251-T1
Valid prediction for snap_scaffold_12-snap.3230-T1
Valid prediction for snap_scaffold_12-snap.3247-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g20493.t1
Valid prediction for GlimmerHMM_glimmerT_30888-T1
Valid prediction for Augustus_model.g20496.t1
Valid prediction for GlimmerHMM_glimmerT_30892-T1
Valid prediction for snap_scaffold_12-snap.3248-T1
Valid prediction for Augustus_model.g20499.t1
Valid prediction for GlimmerHMM_glimmerT_30890-T1
Valid prediction for snap_scaffold_12-snap.3235-T1
Valid prediction for GlimmerHMM_glimmerT_30881-T1
Valid prediction for snap_scaffold_12-snap.3242-T1
Valid prediction for snap_scaffold_12-snap.3252-T1
Valid prediction for snap_scaffold_12-snap.3234-T1
Valid prediction for snap_scaffold_12-snap.3243-T1
Valid prediction for snap_scaffold_12-snap.3237-T1
Valid prediction for GlimmerHMM_glimmerT_30898-T1
Valid prediction for snap_scaffold_12-snap.3233-T1
Valid prediction for Augustus_model.g20489.t1
Valid prediction for GlimmerHMM_glimmerT_30894-T1
Valid prediction for Augustus_model.g20481.t1
Valid prediction for GlimmerHMM_glimmerT_30901-T1
Valid prediction for HiQ_model.g20498.t1
Valid prediction for GlimmerHMM_glimmerT_30886-T1
Valid prediction for snap_scaffold_12-snap.3240-T1
Valid prediction for snap_scaffold_12-snap.3246-T1
Valid prediction for GlimmerHMM_glimmerT_30885-T1
Valid prediction for Augustus_model.g20486.t1
Valid prediction for snap_scaffold_12-snap.3227-T1
Valid prediction for GlimmerHMM_glimmerT_30904-T1
Valid prediction for GlimmerHMM_glimmerT_30895-T1
Valid prediction for snap_scaffold_12-snap.3239-T1
Valid prediction for GlimmerHMM_glimmerT_30884-T1
Couldn't classify 37328, 37420
Couldn't classify 38879, 38987
Sorry, prediction pasa_asmbl_9153.p1 fails validation.
(GAC)	 CA	37328-37420	GT	ATG
(GCA)	 AG	37602-37723	GT	AGG
(CAC)	 AG	37824-37971	GT	AGG
(GGG)	 AG	38344-38465	GT	AGG
(GCA)	 AG	38879-38987	GG	CAG
-recovered pasa_asmbl_9153.p1, internal, 37602, 37723
-recovered pasa_asmbl_9153.p1, internal, 37824, 37971
-recovered pasa_asmbl_9153.p1, internal, 38344, 38465
Valid prediction for GlimmerHMM_glimmerT_30883-T1
Valid prediction for Augustus_model.g20495.t1
Valid prediction for snap_scaffold_12-snap.3253-T1
Valid prediction for snap_scaffold_12-snap.3250-T1
Valid prediction for snap_scaffold_12-snap.3228-T1
Valid prediction for Augustus_model.g20494.t1
Valid prediction for GlimmerHMM_glimmerT_30893-T1
Valid prediction for Augustus_model.g20485.t1
Valid prediction for Augustus_model.g20491.t1
Valid prediction for snap_scaffold_12-snap.3231-T1
Valid prediction for snap_scaffold_12-snap.3232-T1
Valid prediction for Augustus_model.g20488.t1
Valid prediction for GlimmerHMM_glimmerT_30897-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 98915, rend_intergenic: 92880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 131902
-exon list size: 243


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.9    
3.3    
3.7    
4.1    
4.5    
4.9    
5.3    
5.7    
6.1    
6.5    
6.9    
7.3    
7.8    
8.2    
8.6    
9.0    
9.4    
9.8    
10.2    
10.6    
11.0    
11.4    
11.8    
12.2    
12.7    
13.1    
13.5    
13.9    
14.3    
14.7    
15.1    
15.5    
15.9    
16.3    
16.7    
17.1    
17.6    
18.0    
18.4    
18.8    
19.2    
19.6    
20.0    
20.4    
20.8    
21.2    
21.6    
22.0    
22.4    
22.9    
23.3    
23.7    
24.1    
24.5    
24.9    
25.3    
25.7    
26.1    
26.5    
26.9    
27.3    
27.8    
28.2    
28.6    
29.0    
29.4    
29.8    
30.2    
30.6    
31.0    
31.4    
31.8    
32.2    
32.7    
33.1    
33.5    
33.9    
34.3    
34.7    
35.1    
35.5    
35.9    
36.3    
36.7    
37.1    
37.6    
38.0    
38.4    
38.8    
39.2    
39.6    
40.0    
40.4    
40.8    
41.2    
41.6    
42.0    
42.4    
42.9    
43.3    
43.7    
44.1    
44.5    
44.9    
45.3    
45.7    
46.1    
46.5    
46.9    
47.3    
47.8    
48.2    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.8    
52.2    
52.7    
53.1    
53.5    
53.9    
54.3    
54.7    
55.1    
55.5    
55.9    
56.3    
56.7    
57.1    
57.6    
58.0    
58.4    
58.8    
59.2    
59.6    
60.0    
60.4    
60.8    
61.2    
61.6    
62.0    
62.4    
62.9    
63.3    
63.7    
64.1    
64.5    
64.9    
65.3    
65.7    
66.1    
66.5    
66.9    
67.3    
67.8    
68.2    
68.6    
69.0    
69.4    
69.8    
70.2    
70.6    
71.0    
71.4    
71.8    
72.2    
72.7    
73.1    
73.5    
73.9    
74.3    
74.7    
75.1    
75.5    
75.9    
76.3    
76.7    
77.1    
77.6    
78.0    
78.4    
78.8    
79.2    
79.6    
80.0    
80.4    
80.8    
81.2    
81.6    
82.0    
82.4    
82.9    
83.3    
83.7    
84.1    
84.5    
84.9    
85.3    
85.7    
86.1    
86.5    
86.9    
87.3    
87.8    
88.2    
88.6    
89.0    
89.4    
89.8    
90.2    
90.6    
91.0    
91.4    
91.8    
92.2    
92.7    
93.1    
93.5    
93.9    
94.3    
94.7    
95.1    
95.5    
95.9    
96.3    
96.7    
97.1    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 98915, rend_intergenic: 92880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 29 predictions persist after filtering for low support