-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_5889212-6053259

-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.g22671.t1
Valid prediction for GlimmerHMM_glimmerT_33931-T1
Valid prediction for snap_scaffold_14-snap.1208-T1
Valid prediction for snap_scaffold_14-snap.1204-T1
Valid prediction for snap_scaffold_14-snap.1178-T1
Valid prediction for GlimmerHMM_glimmerT_33942-T1
Valid prediction for snap_scaffold_14-snap.1199-T1
Valid prediction for snap_scaffold_14-snap.1214-T1
Valid prediction for CodingQuarry_transcript_15650-T1
Valid prediction for GlimmerHMM_glimmerT_33937-T1
Valid prediction for HiQ_model.g22669.t1
Valid prediction for Augustus_model.g22677.t1
Valid prediction for snap_scaffold_14-snap.1197-T1
Valid prediction for snap_scaffold_14-snap.1189-T1
Valid prediction for CodingQuarry_transcript_15654-T1
Valid prediction for snap_scaffold_14-snap.1186-T1
Valid prediction for Augustus_model.g22678.t1
Valid prediction for CodingQuarry_transcript_15649-T1
Couldn't classify 159821, 159921
Sorry, prediction pasa_asmbl_12047.p1 fails validation.
(AGA)	 AT	159821-159921	GT	TGG
(GTA)	 AG	160277-160435	GT	AGG
(TGG)	 AG	160947-161025	CA	AAC
-recovered pasa_asmbl_12047.p1, terminal, 160947, 161025
-recovered pasa_asmbl_12047.p1, internal, 160277, 160435
Valid prediction for GlimmerHMM_glimmerT_33939-T1
Valid prediction for HiQ_model.g22662.t1
Valid prediction for Augustus_model.g22665.t1
Valid prediction for GlimmerHMM_glimmerT_33924-T1
Valid prediction for GlimmerHMM_glimmerT_33926-T1
Valid prediction for snap_scaffold_14-snap.1185-T1
Valid prediction for GlimmerHMM_glimmerT_33915-T1
Valid prediction for snap_scaffold_14-snap.1210-T1
Valid prediction for GlimmerHMM_glimmerT_33930-T1
Valid prediction for Augustus_model.g22666.t1
Valid prediction for snap_scaffold_14-snap.1195-T1
Valid prediction for GlimmerHMM_glimmerT_33928-T1
Valid prediction for snap_scaffold_14-snap.1212-T1
Valid prediction for snap_scaffold_14-snap.1179-T1
Valid prediction for snap_scaffold_14-snap.1216-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for pasa_asmbl_12037.p1
Valid prediction for Augustus_model.g22676.t1
Valid prediction for GlimmerHMM_glimmerT_33922-T1
Valid prediction for pasa_asmbl_12043.p1
Valid prediction for snap_scaffold_14-snap.1194-T1
Valid prediction for snap_scaffold_14-snap.1190-T1
Valid prediction for GlimmerHMM_glimmerT_33916-T1
Valid prediction for GlimmerHMM_glimmerT_33919-T1
Valid prediction for snap_scaffold_14-snap.1182-T1
Couldn't classify 15974, 16012
Sorry, prediction pasa_asmbl_12039.p1 fails validation.
(ATC)	 CC	15974-16012	GT	AGG
(GTC)	 AG	16227-16456	GT	AAG
(ACA)	 AG	16545-16686	AC	GAA
-recovered pasa_asmbl_12039.p1, terminal, 16545, 16686
-recovered pasa_asmbl_12039.p1, internal, 16227, 16456
Valid prediction for GlimmerHMM_glimmerT_33943-T1
Valid prediction for snap_scaffold_14-snap.1184-T1
Valid prediction for Augustus_model.g22680.t1
Valid prediction for snap_scaffold_14-snap.1207-T1
Valid prediction for Augustus_model.g22663.t1
Valid prediction for GlimmerHMM_glimmerT_33934-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_14-snap.1181-T1
Valid prediction for GlimmerHMM_glimmerT_33940-T1
Valid prediction for GlimmerHMM_glimmerT_33929-T1
Valid prediction for GlimmerHMM_glimmerT_33914-T1
Valid prediction for GlimmerHMM_glimmerT_33923-T1
Valid prediction for snap_scaffold_14-snap.1188-T1
Valid prediction for snap_scaffold_14-snap.1205-T1
Valid prediction for snap_scaffold_14-snap.1217-T1
Valid prediction for snap_scaffold_14-snap.1196-T1
Valid prediction for GlimmerHMM_glimmerT_33935-T1
Valid prediction for snap_scaffold_14-snap.1198-T1
Valid prediction for GlimmerHMM_glimmerT_33938-T1
Valid prediction for HiQ_model.g22670.t1
Valid prediction for pasa_asmbl_13099.p1
Valid prediction for HiQ_model.g22672.t1
Valid prediction for GlimmerHMM_glimmerT_33920-T1
Valid prediction for snap_scaffold_14-snap.1183-T1
Valid prediction for Augustus_model.g22674.t1
Valid prediction for GlimmerHMM_glimmerT_33918-T1
Valid prediction for GlimmerHMM_glimmerT_33932-T1
Valid prediction for GlimmerHMM_glimmerT_33921-T1
Valid prediction for snap_scaffold_14-snap.1187-T1
Valid prediction for GlimmerHMM_glimmerT_33933-T1
Couldn't classify 105412, 105572
Sorry, prediction pasa_asmbl_13103.p1 fails validation.
(ATG)	 GC	103632-103749	GT	AGG
(GAG)	 AG	104063-104168	GT	AGG
(CTT)	 AG	104574-104719	GT	AGG
(CAG)	 AG	105412-105572	TG	CCT
-recovered pasa_asmbl_13103.p1, initial, 103632, 103749
-recovered pasa_asmbl_13103.p1, internal, 104063, 104168
-recovered pasa_asmbl_13103.p1, internal, 104574, 104719
Valid prediction for pasa_asmbl_13108.p1
Valid prediction for snap_scaffold_14-snap.1206-T1
Valid prediction for GlimmerHMM_glimmerT_33925-T1
Couldn't classify 113398, 113569
Sorry, prediction pasa_asmbl_13102.p1 fails validation.
(ATA)	 TG	113398-113569	GT	AGG
(AGT)	 AG	114428-114603	GT	AGG
(GTG)	 AG	116427-116579	GG	GAG
-recovered pasa_asmbl_13102.p1, terminal, 116427, 116579
-recovered pasa_asmbl_13102.p1, internal, 114428, 114603
Valid prediction for GlimmerHMM_glimmerT_33927-T1
Valid prediction for snap_scaffold_14-snap.1177-T1
Valid prediction for snap_scaffold_14-snap.1192-T1
Valid prediction for CodingQuarry_transcript_15653-T1
Valid prediction for GlimmerHMM_glimmerT_33941-T1
Valid prediction for Augustus_model.g22667.t1
Valid prediction for GlimmerHMM_glimmerT_33917-T1
Valid prediction for snap_scaffold_14-snap.1209-T1
Valid prediction for CodingQuarry_transcript_15651-T1
Valid prediction for snap_scaffold_14-snap.1200-T1
Valid prediction for snap_scaffold_14-snap.1201-T1
Valid prediction for snap_scaffold_14-snap.1213-T1
Valid prediction for snap_scaffold_14-snap.1203-T1
Valid prediction for snap_scaffold_14-snap.1202-T1
Valid prediction for HiQ_model.g22664.t1
Valid prediction for snap_scaffold_14-snap.1215-T1
Valid prediction for Augustus_model.g22679.t1
Valid prediction for Augustus_model.g22673.t1
Valid prediction for Augustus_model.g22675.t1
Valid prediction for snap_scaffold_14-snap.1211-T1
Valid prediction for snap_scaffold_14-snap.1180-T1
Valid prediction for snap_scaffold_14-snap.1191-T1
Valid prediction for snap_scaffold_14-snap.1218-T1
Valid prediction for pasa_asmbl_13106.p1
Valid prediction for snap_scaffold_14-snap.1193-T1
Valid prediction for CodingQuarry_transcript_15652-T1
Valid prediction for GlimmerHMM_glimmerT_33936-T1
Valid prediction for Augustus_model.g22668.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16686, rend_intergenic: 12377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32666, rend_intergenic: 26304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58845, rend_intergenic: 37631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68315, rend_intergenic: 64140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80730, rend_intergenic: 75246  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86483, rend_intergenic: 83701  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88688, rend_intergenic: 88563  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91485, rend_intergenic: 88691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94399, rend_intergenic: 91488  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109241, rend_intergenic: 108688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115877, rend_intergenic: 109853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117385, rend_intergenic: 116321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124043, rend_intergenic: 122807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129936, rend_intergenic: 125899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138251, rend_intergenic: 130052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140844, rend_intergenic: 140578  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145201, rend_intergenic: 140911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151418, rend_intergenic: 145925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161123, rend_intergenic: 153276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164048
-exon list size: 399


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.5    
1.7    
2.0    
2.2    
2.5    
2.7    
3.0    
3.2    
3.5    
3.7    
4.0    
4.2    
4.5    
4.7    
5.0    
5.2    
5.5    
5.7    
6.0    
6.2    
6.5    
6.7    
7.0    
7.2    
7.5    
7.7    
8.0    
8.2    
8.5    
8.7    
9.0    
9.2    
9.5    
9.7    
10.0    
10.2    
10.5    
10.7    
11.0    
11.2    
11.5    
11.7    
12.0    
12.2    
12.5    
12.7    
13.0    
13.2    
13.5    
13.7    
14.0    
14.2    
14.5    
14.7    
15.0    
15.2    
15.5    
15.7    
16.0    
16.2    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
18.0    
18.2    
18.5    
18.7    
19.0    
19.2    
19.5    
19.7    
20.0    
20.2    
20.4    
20.7    
20.9    
21.2    
21.4    
21.7    
21.9    
22.2    
22.4    
22.7    
22.9    
23.2    
23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
26.9    
27.2    
27.4    
27.7    
27.9    
28.2    
28.4    
28.7    
28.9    
29.2    
29.4    
29.7    
29.9    
30.2    
30.4    
30.7    
30.9    
31.2    
31.4    
31.7    
31.9    
32.2    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
34.9    
35.2    
35.4    
35.7    
35.9    
36.2    
36.4    
36.7    
36.9    
37.2    
37.4    
37.7    
37.9    
38.2    
38.4    
38.7    
38.9    
39.2    
39.4    
39.7    
39.9    
40.1    
40.4    
40.6    
40.9    
41.1    
41.4    
41.6    
41.9    
42.1    
42.4    
42.6    
42.9    
43.1    
43.4    
43.6    
43.9    
44.1    
44.4    
44.6    
44.9    
45.1    
45.4    
45.6    
45.9    
46.1    
46.4    
46.6    
46.9    
47.1    
47.4    
47.6    
47.9    
48.1    
48.4    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.1    
51.4    
51.6    
51.9    
52.1    
52.4    
52.6    
52.9    
53.1    
53.4    
53.6    
53.9    
54.1    
54.4    
54.6    
54.9    
55.1    
55.4    
55.6    
55.9    
56.1    
56.4    
56.6    
56.9    
57.1    
57.4    
57.6    
57.9    
58.1    
58.4    
58.6    
58.9    
59.1    
59.4    
59.6    
59.9    
60.1    
60.3    
60.6    
60.8    
61.1    
61.3    
61.6    
61.8    
62.1    
62.3    
62.6    
62.8    
63.1    
63.3    
63.6    
63.8    
64.1    
64.3    
64.6    
64.8    
65.1    
65.3    
65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.3    
67.6    
67.8    
68.1    
68.3    
68.6    
68.8    
69.1    
69.3    
69.6    
69.8    
70.1    
70.3    
70.6    
70.8    
71.1    
71.3    
71.6    
71.8    
72.1    
72.3    
72.6    
72.8    
73.1    
73.3    
73.6    
73.8    
74.1    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.1    
77.3    
77.6    
77.8    
78.1    
78.3    
78.6    
78.8    
79.1    
79.3    
79.6    
79.8    
80.0    
80.3    
80.5    
80.8    
81.0    
81.3    
81.5    
81.8    
82.0    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.8    
84.0    
84.3    
84.5    
84.8    
85.0    
85.3    
85.5    
85.8    
86.0    
86.3    
86.5    
86.8    
87.0    
87.3    
87.5    
87.8    
88.0    
88.3    
88.5    
88.8    
89.0    
89.3    
89.5    
89.8    
90.0    
90.3    
90.5    
90.8    
91.0    
91.3    
91.5    
91.8    
92.0    
92.3    
92.5    
92.8    
93.0    
93.3    
93.5    
93.8    
94.0    
94.3    
94.5    
94.8    
95.0    
95.3    
95.5    
95.8    
96.0    
96.3    
96.5    
96.8    
97.0    
97.3    
97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 16686, rend_intergenic: 12377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32666, rend_intergenic: 26304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58845, rend_intergenic: 37631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68315, rend_intergenic: 64140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80730, rend_intergenic: 75246  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86483, rend_intergenic: 83701  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88688, rend_intergenic: 88563  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91485, rend_intergenic: 88691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94399, rend_intergenic: 91488  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109241, rend_intergenic: 108688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115877, rend_intergenic: 109853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117385, rend_intergenic: 116321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124043, rend_intergenic: 122807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129936, rend_intergenic: 125899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138251, rend_intergenic: 130052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140844, rend_intergenic: 140578  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145201, rend_intergenic: 140911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151418, rend_intergenic: 145925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161123, rend_intergenic: 153276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support