-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_5/scaffold_5_11996689-12184114

-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_5-snap.2228-T1
Valid prediction for snap_scaffold_5-snap.2229-T1
Valid prediction for snap_scaffold_5-snap.2224-T1
Valid prediction for GlimmerHMM_glimmerT_12759-T1
Valid prediction for snap_scaffold_5-snap.2227-T1
Valid prediction for GlimmerHMM_glimmerT_12747-T1
Valid prediction for Augustus_model.g8438.t1
Couldn't classify 165049, 165108
Couldn't classify 167424, 167512
Sorry, prediction pasa_asmbl_45783.p1 fails validation.
(AAC)	 GG	165049-165108	GT	AGG
(GAT)	 AG	165546-165686	GT	GGG
(GTT)	 AG	165838-165976	GT	TGG
(ACG)	 AG	167424-167512	TC	CCT
-recovered pasa_asmbl_45783.p1, internal, 165546, 165686
-recovered pasa_asmbl_45783.p1, internal, 165838, 165976
Valid prediction for GlimmerHMM_glimmerT_12755-T1
Valid prediction for GlimmerHMM_glimmerT_12761-T1
Valid prediction for snap_scaffold_5-snap.2221-T1
Valid prediction for snap_scaffold_5-snap.2223-T1
Valid prediction for snap_scaffold_5-snap.2236-T1
Valid prediction for GlimmerHMM_glimmerT_12756-T1
Valid prediction for CodingQuarry_transcript_52271-T1
Valid prediction for snap_scaffold_5-snap.2241-T1
Valid prediction for snap_scaffold_5-snap.2217-T1
Valid prediction for snap_scaffold_5-snap.2243-T1
Valid prediction for snap_scaffold_5-snap.2244-T1
Valid prediction for snap_scaffold_5-snap.2219-T1
Valid prediction for Augustus_model.g8450.t1
Valid prediction for Augustus_model.g8449.t1
Valid prediction for Augustus_model.g8443.t1
Valid prediction for snap_scaffold_5-snap.2231-T1
Valid prediction for HiQ_model.g8442.t1
Valid prediction for Augustus_model.g8448.t1
Valid prediction for GlimmerHMM_glimmerT_12757-T1
Valid prediction for Augustus_model.g8440.t1
Valid prediction for snap_scaffold_5-snap.2240-T1
Valid prediction for snap_scaffold_5-snap.2233-T1
Valid prediction for snap_scaffold_5-snap.2215-T1
Valid prediction for GlimmerHMM_glimmerT_12751-T1
Valid prediction for GlimmerHMM_glimmerT_12744-T1
Valid prediction for snap_scaffold_5-snap.2214-T1
Valid prediction for Augustus_model.g8447.t1
Valid prediction for pasa_asmbl_45782.p1
Valid prediction for Augustus_model.g8446.t1
Valid prediction for GlimmerHMM_glimmerT_12750-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_5-snap.2225-T1
Valid prediction for GlimmerHMM_glimmerT_12749-T1
Valid prediction for GlimmerHMM_glimmerT_12758-T1
Valid prediction for GlimmerHMM_glimmerT_12753-T1
Valid prediction for GlimmerHMM_glimmerT_12754-T1
Valid prediction for Augustus_model.g8444.t1
Valid prediction for snap_scaffold_5-snap.2230-T1
Valid prediction for HiQ_model.g8441.t1
Valid prediction for snap_scaffold_5-snap.2246-T1
Valid prediction for snap_scaffold_5-snap.2247-T1
Valid prediction for Augustus_model.g8439.t1
Valid prediction for GlimmerHMM_glimmerT_12748-T1
Valid prediction for CodingQuarry_transcript_52270-T1
Valid prediction for GlimmerHMM_glimmerT_12752-T1
Valid prediction for snap_scaffold_5-snap.2234-T1
Valid prediction for snap_scaffold_5-snap.2226-T1
Valid prediction for GlimmerHMM_glimmerT_12746-T1
Valid prediction for GlimmerHMM_glimmerT_12763-T1
Valid prediction for snap_scaffold_5-snap.2239-T1
Valid prediction for snap_scaffold_5-snap.2237-T1
Valid prediction for pasa_asmbl_44437.p1
Valid prediction for snap_scaffold_5-snap.2213-T1
Valid prediction for snap_scaffold_5-snap.2242-T1
Valid prediction for snap_scaffold_5-snap.2235-T1
Valid prediction for Augustus_model.g8437.t1
Valid prediction for snap_scaffold_5-snap.2216-T1
Valid prediction for snap_scaffold_5-snap.2232-T1
Valid prediction for snap_scaffold_5-snap.2220-T1
Valid prediction for Augustus_model.g8451.t1
Valid prediction for snap_scaffold_5-snap.2238-T1
Valid prediction for GlimmerHMM_glimmerT_12745-T1
Valid prediction for Augustus_model.g8445.t1
Valid prediction for snap_scaffold_5-snap.2222-T1
Valid prediction for GlimmerHMM_glimmerT_12762-T1
Valid prediction for snap_scaffold_5-snap.2245-T1
Valid prediction for GlimmerHMM_glimmerT_12760-T1
Valid prediction for GlimmerHMM_glimmerT_12743-T1
Valid prediction for snap_scaffold_5-snap.2212-T1
Valid prediction for snap_scaffold_5-snap.2218-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19423, rend_intergenic: 16469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25568, rend_intergenic: 20648  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34675, rend_intergenic: 33338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119710, rend_intergenic: 118319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122067, rend_intergenic: 119983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131471, rend_intergenic: 124507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149875, rend_intergenic: 135656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160687, rend_intergenic: 159899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164821, rend_intergenic: 161148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168577, rend_intergenic: 166398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 187426
-exon list size: 296


building trellis

0.3    
0.7    
1.0    
1.3    
1.7    
2.0    
2.3    
2.7    
3.0    
3.4    
3.7    
4.0    
4.4    
4.7    
5.0    
5.4    
5.7    
6.0    
6.4    
6.7    
7.0    
7.4    
7.7    
8.1    
8.4    
8.7    
9.1    
9.4    
9.7    
10.1    
10.4    
10.7    
11.1    
11.4    
11.7    
12.1    
12.4    
12.8    
13.1    
13.4    
13.8    
14.1    
14.4    
14.8    
15.1    
15.4    
15.8    
16.1    
16.4    
16.8    
17.1    
17.4    
17.8    
18.1    
18.5    
18.8    
19.1    
19.5    
19.8    
20.1    
20.5    
20.8    
21.1    
21.5    
21.8    
22.1    
22.5    
22.8    
23.2    
23.5    
23.8    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.2    
26.5    
26.8    
27.2    
27.5    
27.9    
28.2    
28.5    
28.9    
29.2    
29.5    
29.9    
30.2    
30.5    
30.9    
31.2    
31.5    
31.9    
32.2    
32.6    
32.9    
33.2    
33.6    
33.9    
34.2    
34.6    
34.9    
35.2    
35.6    
35.9    
36.2    
36.6    
36.9    
37.2    
37.6    
37.9    
38.3    
38.6    
38.9    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.3    
41.6    
41.9    
42.3    
42.6    
43.0    
43.3    
43.6    
44.0    
44.3    
44.6    
45.0    
45.3    
45.6    
46.0    
46.3    
46.6    
47.0    
47.3    
47.7    
48.0    
48.3    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.7    
52.0    
52.3    
52.7    
53.0    
53.4    
53.7    
54.0    
54.4    
54.7    
55.0    
55.4    
55.7    
56.0    
56.4    
56.7    
57.0    
57.4    
57.7    
58.1    
58.4    
58.7    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.1    
61.4    
61.7    
62.1    
62.4    
62.8    
63.1    
63.4    
63.8    
64.1    
64.4    
64.8    
65.1    
65.4    
65.8    
66.1    
66.4    
66.8    
67.1    
67.4    
67.8    
68.1    
68.5    
68.8    
69.1    
69.5    
69.8    
70.1    
70.5    
70.8    
71.1    
71.5    
71.8    
72.1    
72.5    
72.8    
73.2    
73.5    
73.8    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.2    
76.5    
76.8    
77.2    
77.5    
77.9    
78.2    
78.5    
78.9    
79.2    
79.5    
79.9    
80.2    
80.5    
80.9    
81.2    
81.5    
81.9    
82.2    
82.6    
82.9    
83.2    
83.6    
83.9    
84.2    
84.6    
84.9    
85.2    
85.6    
85.9    
86.2    
86.6    
86.9    
87.2    
87.6    
87.9    
88.3    
88.6    
88.9    
89.3    
89.6    
89.9    
90.3    
90.6    
90.9    
91.3    
91.6    
91.9    
92.3    
92.6    
93.0    
93.3    
93.6    
94.0    
94.3    
94.6    
95.0    
95.3    
95.6    
96.0    
96.3    
96.6    
97.0    
97.3    
97.7    
98.0    
98.3    
98.7    
99.0    
99.3    
99.7    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 19423, rend_intergenic: 16469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25568, rend_intergenic: 20648  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34675, rend_intergenic: 33338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119710, rend_intergenic: 118319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122067, rend_intergenic: 119983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131471, rend_intergenic: 124507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149875, rend_intergenic: 135656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160687, rend_intergenic: 159899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164821, rend_intergenic: 161148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168577, rend_intergenic: 166398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support