-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_7007181-7205824

-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_1-snap.1215-T1
Valid prediction for GlimmerHMM_glimmerT_965-T1
Valid prediction for Augustus_model.g735.t1
Valid prediction for snap_scaffold_1-snap.1212-T1
Valid prediction for snap_scaffold_1-snap.1193-T1
Valid prediction for snap_scaffold_1-snap.1205-T1
Valid prediction for snap_scaffold_1-snap.1222-T1
Valid prediction for Augustus_model.g730.t1
Valid prediction for HiQ_model.g721.t1
Valid prediction for HiQ_model.g729.t1
Valid prediction for snap_scaffold_1-snap.1207-T1
Valid prediction for GlimmerHMM_glimmerT_991-T1
Valid prediction for GlimmerHMM_glimmerT_963-T1
Valid prediction for snap_scaffold_1-snap.1194-T1
Valid prediction for CodingQuarry_transcript_2680-T1
Valid prediction for GlimmerHMM_glimmerT_985-T1
Valid prediction for snap_scaffold_1-snap.1191-T1
Valid prediction for snap_scaffold_1-snap.1196-T1
Valid prediction for snap_scaffold_1-snap.1216-T1
Valid prediction for snap_scaffold_1-snap.1211-T1
Valid prediction for GlimmerHMM_glimmerT_983-T1
Valid prediction for snap_scaffold_1-snap.1230-T1
Valid prediction for GlimmerHMM_glimmerT_967-T1
Valid prediction for snap_scaffold_1-snap.1221-T1
Valid prediction for snap_scaffold_1-snap.1229-T1
Valid prediction for snap_scaffold_1-snap.1188-T1
Valid prediction for snap_scaffold_1-snap.1226-T1
Valid prediction for Augustus_model.g722.t1
Valid prediction for Augustus_model.g740.t1
Valid prediction for GlimmerHMM_glimmerT_982-T1
Valid prediction for pasa_asmbl_1881.p1
Valid prediction for snap_scaffold_1-snap.1218-T1
Valid prediction for GlimmerHMM_glimmerT_966-T1
Valid prediction for GlimmerHMM_glimmerT_993-T1
Valid prediction for Augustus_model.g732.t1
Couldn't classify 153725, 153904
Sorry, prediction pasa_asmbl_1884.p1 fails validation.
(GAA)	 CA	153725-153904	GT	AGG
(GAT)	 AG	154500-154589	GT	CAG
(CAC)	 AG	155023-155134	GT	TGG
(AAG)	 AG	155271-155401	GT	AGG
(GAA)	 AG	155699-155773	GA	AGG
-recovered pasa_asmbl_1884.p1, terminal, 155699, 155773
-recovered pasa_asmbl_1884.p1, internal, 154500, 154589
-recovered pasa_asmbl_1884.p1, internal, 155023, 155134
-recovered pasa_asmbl_1884.p1, internal, 155271, 155401
Valid prediction for snap_scaffold_1-snap.1232-T1
Valid prediction for GlimmerHMM_glimmerT_973-T1
Valid prediction for snap_scaffold_1-snap.1228-T1
Valid prediction for CodingQuarry_transcript_2678-T1
Valid prediction for snap_scaffold_1-snap.1225-T1
Valid prediction for snap_scaffold_1-snap.1223-T1
Valid prediction for Augustus_model.g734.t1
Valid prediction for GlimmerHMM_glimmerT_975-T1
Valid prediction for pasa_asmbl_1885.p1
Valid prediction for CodingQuarry_transcript_2676-T1
Valid prediction for GlimmerHMM_glimmerT_988-T1
Valid prediction for GlimmerHMM_glimmerT_972-T1
Valid prediction for snap_scaffold_1-snap.1217-T1
Couldn't classify 194033, 194050
Couldn't classify 196162, 196192
Sorry, prediction pasa_asmbl_1888.p1 fails validation.
(AAC)	 AC	194033-194050	GT	TGG
(AGC)	 AG	194307-194409	GT	AGG
(GTC)	 AG	194767-194878	GT	GGG
(AAT)	 AG	195136-195212	GT	GTG
(GTA)	 AG	195762-195888	GT	AGG
(GGT)	 AG	196162-196192	GC	CAG
-recovered pasa_asmbl_1888.p1, internal, 194307, 194409
-recovered pasa_asmbl_1888.p1, internal, 194767, 194878
-recovered pasa_asmbl_1888.p1, internal, 195136, 195212
-recovered pasa_asmbl_1888.p1, internal, 195762, 195888
-recovered pasa_asmbl_1888.p1, internal, 196162, 196192
Valid prediction for snap_scaffold_1-snap.1208-T1
Valid prediction for pasa_asmbl_1882.p1
Valid prediction for GlimmerHMM_glimmerT_969-T1
Valid prediction for Augustus_model.g738.t1
Valid prediction for HiQ_model.g736.t1
Valid prediction for Augustus_model.g728.t1
Valid prediction for GlimmerHMM_glimmerT_978-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.g720.t1
Valid prediction for Augustus_model.g733.t1
Valid prediction for Augustus_model.g725.t1
Valid prediction for snap_scaffold_1-snap.1227-T1
Valid prediction for GlimmerHMM_glimmerT_971-T1
Valid prediction for GlimmerHMM_glimmerT_992-T1
Valid prediction for snap_scaffold_1-snap.1199-T1
Valid prediction for snap_scaffold_1-snap.1224-T1
Valid prediction for Augustus_model.g727.t1
Valid prediction for Augustus_model.g739.t1
Valid prediction for snap_scaffold_1-snap.1206-T1
Valid prediction for snap_scaffold_1-snap.1204-T1
Valid prediction for snap_scaffold_1-snap.1210-T1
Valid prediction for snap_scaffold_1-snap.1189-T1
Valid prediction for pasa_asmbl_412.p1
Valid prediction for snap_scaffold_1-snap.1231-T1
Valid prediction for GlimmerHMM_glimmerT_974-T1
Valid prediction for snap_scaffold_1-snap.1220-T1
Valid prediction for GlimmerHMM_glimmerT_970-T1
Valid prediction for GlimmerHMM_glimmerT_989-T1
Valid prediction for snap_scaffold_1-snap.1192-T1
Valid prediction for GlimmerHMM_glimmerT_990-T1
Valid prediction for GlimmerHMM_glimmerT_977-T1
Valid prediction for snap_scaffold_1-snap.1200-T1
Valid prediction for GlimmerHMM_glimmerT_979-T1
Valid prediction for GlimmerHMM_glimmerT_968-T1
Valid prediction for snap_scaffold_1-snap.1198-T1
Valid prediction for GlimmerHMM_glimmerT_964-T1
Valid prediction for Augustus_model.g724.t1
Valid prediction for GlimmerHMM_glimmerT_987-T1
Valid prediction for snap_scaffold_1-snap.1209-T1
Valid prediction for snap_scaffold_1-snap.1195-T1
Valid prediction for snap_scaffold_1-snap.1219-T1
Valid prediction for Augustus_model.g737.t1
Valid prediction for snap_scaffold_1-snap.1214-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_980-T1
Valid prediction for snap_scaffold_1-snap.1202-T1
Valid prediction for snap_scaffold_1-snap.1201-T1
Valid prediction for GlimmerHMM_glimmerT_986-T1
Valid prediction for snap_scaffold_1-snap.1190-T1
Valid prediction for CodingQuarry_transcript_2679-T1
Valid prediction for GlimmerHMM_glimmerT_981-T1
Valid prediction for snap_scaffold_1-snap.1197-T1
Valid prediction for Augustus_model.g731.t1
Valid prediction for GlimmerHMM_glimmerT_984-T1
Valid prediction for GlimmerHMM_glimmerT_976-T1
Valid prediction for snap_scaffold_1-snap.1213-T1
Valid prediction for Augustus_model.g723.t1
Valid prediction for CodingQuarry_transcript_2677-T1
Valid prediction for snap_scaffold_1-snap.1203-T1
Valid prediction for Augustus_model.g726.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8573, rend_intergenic: 4934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16838, rend_intergenic: 13944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23448, rend_intergenic: 17319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35319, rend_intergenic: 34938  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39963, rend_intergenic: 35627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85156, rend_intergenic: 80654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130333, rend_intergenic: 114376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135257, rend_intergenic: 130685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144699, rend_intergenic: 140948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161084, rend_intergenic: 158221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183616, rend_intergenic: 177212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191911, rend_intergenic: 189390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 198644
-exon list size: 406


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.5    
1.7    
2.0    
2.2    
2.5    
2.7    
2.9    
3.2    
3.4    
3.7    
3.9    
4.2    
4.4    
4.7    
4.9    
5.1    
5.4    
5.6    
5.9    
6.1    
6.4    
6.6    
6.9    
7.1    
7.4    
7.6    
7.8    
8.1    
8.3    
8.6    
8.8    
9.1    
9.3    
9.6    
9.8    
10.0    
10.3    
10.5    
10.8    
11.0    
11.3    
11.5    
11.8    
12.0    
12.3    
12.5    
12.7    
13.0    
13.2    
13.5    
13.7    
14.0    
14.2    
14.5    
14.7    
15.0    
15.2    
15.4    
15.7    
15.9    
16.2    
16.4    
16.7    
16.9    
17.2    
17.4    
17.6    
17.9    
18.1    
18.4    
18.6    
18.9    
19.1    
19.4    
19.6    
19.9    
20.1    
20.3    
20.6    
20.8    
21.1    
21.3    
21.6    
21.8    
22.1    
22.3    
22.5    
22.8    
23.0    
23.3    
23.5    
23.8    
24.0    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
26.0    
26.2    
26.5    
26.7    
27.0    
27.2    
27.5    
27.7    
27.9    
28.2    
28.4    
28.7    
28.9    
29.2    
29.4    
29.7    
29.9    
30.1    
30.4    
30.6    
30.9    
31.1    
31.4    
31.6    
31.9    
32.1    
32.4    
32.6    
32.8    
33.1    
33.3    
33.6    
33.8    
34.1    
34.3    
34.6    
34.8    
35.0    
35.3    
35.5    
35.8    
36.0    
36.3    
36.5    
36.8    
37.0    
37.3    
37.5    
37.7    
38.0    
38.2    
38.5    
38.7    
39.0    
39.2    
39.5    
39.7    
40.0    
40.2    
40.4    
40.7    
40.9    
41.2    
41.4    
41.7    
41.9    
42.2    
42.4    
42.6    
42.9    
43.1    
43.4    
43.6    
43.9    
44.1    
44.4    
44.6    
44.9    
45.1    
45.3    
45.6    
45.8    
46.1    
46.3    
46.6    
46.8    
47.1    
47.3    
47.5    
47.8    
48.0    
48.3    
48.5    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.5    
51.7    
52.0    
52.2    
52.5    
52.7    
52.9    
53.2    
53.4    
53.7    
53.9    
54.2    
54.4    
54.7    
54.9    
55.1    
55.4    
55.6    
55.9    
56.1    
56.4    
56.6    
56.9    
57.1    
57.4    
57.6    
57.8    
58.1    
58.3    
58.6    
58.8    
59.1    
59.3    
59.6    
59.8    
60.0    
60.3    
60.5    
60.8    
61.0    
61.3    
61.5    
61.8    
62.0    
62.3    
62.5    
62.7    
63.0    
63.2    
63.5    
63.7    
64.0    
64.2    
64.5    
64.7    
65.0    
65.2    
65.4    
65.7    
65.9    
66.2    
66.4    
66.7    
66.9    
67.2    
67.4    
67.6    
67.9    
68.1    
68.4    
68.6    
68.9    
69.1    
69.4    
69.6    
69.9    
70.1    
70.3    
70.6    
70.8    
71.1    
71.3    
71.6    
71.8    
72.1    
72.3    
72.5    
72.8    
73.0    
73.3    
73.5    
73.8    
74.0    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
76.0    
76.2    
76.5    
76.7    
77.0    
77.2    
77.5    
77.7    
77.9    
78.2    
78.4    
78.7    
78.9    
79.2    
79.4    
79.7    
79.9    
80.1    
80.4    
80.6    
80.9    
81.1    
81.4    
81.6    
81.9    
82.1    
82.4    
82.6    
82.8    
83.1    
83.3    
83.6    
83.8    
84.1    
84.3    
84.6    
84.8    
85.0    
85.3    
85.5    
85.8    
86.0    
86.3    
86.5    
86.8    
87.0    
87.3    
87.5    
87.7    
88.0    
88.2    
88.5    
88.7    
89.0    
89.2    
89.5    
89.7    
90.0    
90.2    
90.4    
90.7    
90.9    
91.2    
91.4    
91.7    
91.9    
92.2    
92.4    
92.6    
92.9    
93.1    
93.4    
93.6    
93.9    
94.1    
94.4    
94.6    
94.9    
95.1    
95.3    
95.6    
95.8    
96.1    
96.3    
96.6    
96.8    
97.1    
97.3    
97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 8573, rend_intergenic: 4934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16838, rend_intergenic: 13944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23448, rend_intergenic: 17319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35319, rend_intergenic: 34938  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39963, rend_intergenic: 35627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85156, rend_intergenic: 80654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130333, rend_intergenic: 114376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135257, rend_intergenic: 130685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144699, rend_intergenic: 140948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161084, rend_intergenic: 158221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183616, rend_intergenic: 177212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191911, rend_intergenic: 189390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support