-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_11262329-11447816

-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_25431-T1
Valid prediction for Augustus_model.g16919.t1
Valid prediction for GlimmerHMM_glimmerT_25437-T1
Valid prediction for snap_scaffold_10-snap.2236-T1
Valid prediction for snap_scaffold_10-snap.2197-T1
Valid prediction for snap_scaffold_10-snap.2200-T1
Valid prediction for snap_scaffold_10-snap.2219-T1
Valid prediction for snap_scaffold_10-snap.2223-T1
Valid prediction for GlimmerHMM_glimmerT_25448-T1
Valid prediction for snap_scaffold_10-snap.2217-T1
Valid prediction for snap_scaffold_10-snap.2222-T1
Valid prediction for Augustus_model.g16914.t1
Valid prediction for snap_scaffold_10-snap.2201-T1
Valid prediction for GlimmerHMM_glimmerT_25442-T1
Valid prediction for snap_scaffold_10-snap.2232-T1
Valid prediction for snap_scaffold_10-snap.2233-T1
Valid prediction for snap_scaffold_10-snap.2227-T1
Valid prediction for GlimmerHMM_glimmerT_25444-T1
Valid prediction for snap_scaffold_10-snap.2238-T1
Valid prediction for Augustus_model.g16924.t1
Valid prediction for snap_scaffold_10-snap.2198-T1
Valid prediction for snap_scaffold_10-snap.2225-T1
Valid prediction for snap_scaffold_10-snap.2240-T1
Valid prediction for snap_scaffold_10-snap.2229-T1
Valid prediction for snap_scaffold_10-snap.2207-T1
Valid prediction for GlimmerHMM_glimmerT_25439-T1
Valid prediction for GlimmerHMM_glimmerT_25445-T1
Valid prediction for GlimmerHMM_glimmerT_25435-T1
Valid prediction for snap_scaffold_10-snap.2234-T1
Valid prediction for snap_scaffold_10-snap.2212-T1
Valid prediction for GlimmerHMM_glimmerT_25441-T1
Valid prediction for snap_scaffold_10-snap.2237-T1
Valid prediction for snap_scaffold_10-snap.2210-T1
Valid prediction for snap_scaffold_10-snap.2204-T1
Valid prediction for snap_scaffold_10-snap.2205-T1
Valid prediction for snap_scaffold_10-snap.2195-T1
Valid prediction for Augustus_model.g16918.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_10-snap.2226-T1
Valid prediction for Augustus_model.g16916.t1
Valid prediction for snap_scaffold_10-snap.2214-T1
Valid prediction for Augustus_model.g16923.t1
Valid prediction for snap_scaffold_10-snap.2239-T1
Couldn't classify 52619, 53401
Couldn't classify 54033, 54102
Sorry, prediction pasa_asmbl_4776.p1 fails validation.
(ACC)	 AG	52619-53401	GT	GTG
(GAT)	 AG	53606-53796	GT	AGG
(CCA)	 AG	54033-54102	CA	TGC
-recovered pasa_asmbl_4776.p1, internal, 52619, 53401
-recovered pasa_asmbl_4776.p1, internal, 53606, 53796
Valid prediction for Augustus_model.g16912.t1
Valid prediction for snap_scaffold_10-snap.2215-T1
Valid prediction for snap_scaffold_10-snap.2196-T1
Valid prediction for HiQ_model.g16911.t1
Valid prediction for snap_scaffold_10-snap.2213-T1
Couldn't classify 136246, 136336
Couldn't classify 138745, 138833
Sorry, prediction pasa_asmbl_5106.p1 fails validation.
(GGT)	 AT	136246-136336	GT	GAG
(CTG)	 AG	136607-136709	GT	AGG
(GCG)	 AG	138355-138470	GT	TGG
(GTC)	 AG	138745-138833	AG	CCA
-recovered pasa_asmbl_5106.p1, internal, 136607, 136709
-recovered pasa_asmbl_5106.p1, internal, 138355, 138470
Valid prediction for GlimmerHMM_glimmerT_25430-T1
Valid prediction for GlimmerHMM_glimmerT_25449-T1
Valid prediction for snap_scaffold_10-snap.2220-T1
Valid prediction for GlimmerHMM_glimmerT_25438-T1
Valid prediction for GlimmerHMM_glimmerT_25436-T1
Valid prediction for Augustus_model.g16921.t1
Valid prediction for snap_scaffold_10-snap.2206-T1
Valid prediction for snap_scaffold_10-snap.2202-T1
Valid prediction for snap_scaffold_10-snap.2231-T1
Valid prediction for snap_scaffold_10-snap.2194-T1
Valid prediction for snap_scaffold_10-snap.2203-T1
Valid prediction for CodingQuarry_transcript_5568-T1
Valid prediction for Augustus_model.g16915.t1
Valid prediction for snap_scaffold_10-snap.2216-T1
Valid prediction for GlimmerHMM_glimmerT_25450-T1
Valid prediction for snap_scaffold_10-snap.2218-T1
Valid prediction for snap_scaffold_10-snap.2241-T1
Valid prediction for GlimmerHMM_glimmerT_25440-T1
Valid prediction for Augustus_model.g16922.t1
Valid prediction for GlimmerHMM_glimmerT_25443-T1
Valid prediction for GlimmerHMM_glimmerT_25446-T1
Valid prediction for snap_scaffold_10-snap.2228-T1
Valid prediction for Augustus_model.g16920.t1
Valid prediction for snap_scaffold_10-snap.2221-T1
Valid prediction for snap_scaffold_10-snap.2224-T1
Valid prediction for GlimmerHMM_glimmerT_25432-T1
Valid prediction for snap_scaffold_10-snap.2235-T1
Valid prediction for snap_scaffold_10-snap.2208-T1
Valid prediction for snap_scaffold_10-snap.2230-T1
Couldn't classify 177870, 177969
Couldn't classify 178122, 178318
Sorry, prediction pasa_asmbl_5130.p1 fails validation.
(GAG)	 CA	177870-177969	GT	AGG
(AGG)	 AG	178122-178318	GT	AGG
-recovered pasa_asmbl_5130.p1, internal, 178122, 178318
Valid prediction for GlimmerHMM_glimmerT_25434-T1
Valid prediction for snap_scaffold_10-snap.2199-T1
Valid prediction for GlimmerHMM_glimmerT_25447-T1
Valid prediction for snap_scaffold_10-snap.2211-T1
Valid prediction for Augustus_model.g16913.t1
Valid prediction for Augustus_model.g16917.t1
Valid prediction for GlimmerHMM_glimmerT_25433-T1
Valid prediction for snap_scaffold_10-snap.2209-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6543, rend_intergenic: 3437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7249, rend_intergenic: 6611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23825, rend_intergenic: 7256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34098, rend_intergenic: 25190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36890, rend_intergenic: 34218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45691, rend_intergenic: 40338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49199, rend_intergenic: 45778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54788, rend_intergenic: 51092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61846, rend_intergenic: 59022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93685, rend_intergenic: 89281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99974, rend_intergenic: 97953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121213, rend_intergenic: 109341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127783, rend_intergenic: 121326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131910, rend_intergenic: 129380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138018, rend_intergenic: 135377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142090, rend_intergenic: 139252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160628, rend_intergenic: 146434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161081, rend_intergenic: 160805  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170493, rend_intergenic: 161138  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179877, rend_intergenic: 177019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 185488
-exon list size: 351


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
2.0    
2.3    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.7    
13.0    
13.3    
13.6    
13.9    
14.2    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.1    
16.4    
16.7    
17.0    
17.3    
17.6    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.1    
33.4    
33.7    
34.0    
34.3    
34.6    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.4    
65.7    
66.0    
66.3    
66.6    
66.9    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.4    
82.7    
83.0    
83.3    
83.6    
83.9    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.7    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 6543, rend_intergenic: 3437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7249, rend_intergenic: 6611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23825, rend_intergenic: 7256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34098, rend_intergenic: 25190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36890, rend_intergenic: 34218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45691, rend_intergenic: 40338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49199, rend_intergenic: 45778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54788, rend_intergenic: 51092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61846, rend_intergenic: 59022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93685, rend_intergenic: 89281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99974, rend_intergenic: 97953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121213, rend_intergenic: 109341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127783, rend_intergenic: 121326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131910, rend_intergenic: 129380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138018, rend_intergenic: 135377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142090, rend_intergenic: 139252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160628, rend_intergenic: 146434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161081, rend_intergenic: 160805  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170493, rend_intergenic: 161138  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179877, rend_intergenic: 177019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support