-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_5901168-6114975

-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_36279-T1
Valid prediction for snap_scaffold_15-snap.1307-T1
Valid prediction for snap_scaffold_15-snap.1299-T1
Valid prediction for CodingQuarry_transcript_18019-T1
Valid prediction for snap_scaffold_15-snap.1282-T1
Valid prediction for GlimmerHMM_glimmerT_36273-T1
Valid prediction for HiQ_model.g24171.t1
Valid prediction for snap_scaffold_15-snap.1294-T1
Couldn't classify 186339, 186428
Couldn't classify 186556, 186620
Couldn't classify 187335, 187446
Sorry, prediction pasa_asmbl_15235.p1 fails validation.
(ATG)	 TA	184913-185048	GT	TGG
(AGA)	 AG	185149-185239	GT	CAG
(GCT)	 AG	185383-185510	GT	AGG
(GGA)	 AG	185604-185683	GT	AGG
(AGT)	 AG	186047-186143	GT	AGG
(AAT)	 AG	186339-186428	AT	AGA
(GTC)	 AC	186556-186620	GT	AGG
(GCA)	 AG	186757-186796	GT	TGG
(TGC)	 AG	187037-187163	GT	AGG
(TGC)	 AG	187335-187446	TC	ACT
-recovered pasa_asmbl_15235.p1, initial, 184913, 185048
-recovered pasa_asmbl_15235.p1, internal, 185149, 185239
-recovered pasa_asmbl_15235.p1, internal, 185383, 185510
-recovered pasa_asmbl_15235.p1, internal, 185604, 185683
-recovered pasa_asmbl_15235.p1, internal, 186047, 186143
-recovered pasa_asmbl_15235.p1, internal, 186757, 186796
-recovered pasa_asmbl_15235.p1, internal, 187037, 187163
Valid prediction for snap_scaffold_15-snap.1286-T1
Valid prediction for snap_scaffold_15-snap.1292-T1
Valid prediction for snap_scaffold_15-snap.1310-T1
Valid prediction for pasa_asmbl_15233.p1
Valid prediction for snap_scaffold_15-snap.1314-T1
Valid prediction for GlimmerHMM_glimmerT_36280-T1
Valid prediction for GlimmerHMM_glimmerT_36256-T1
Valid prediction for snap_scaffold_15-snap.1303-T1
Valid prediction for GlimmerHMM_glimmerT_36276-T1
Valid prediction for Augustus_model.g24163.t1
Valid prediction for snap_scaffold_15-snap.1313-T1
Valid prediction for GlimmerHMM_glimmerT_36269-T1
Valid prediction for GlimmerHMM_glimmerT_36266-T1
Valid prediction for snap_scaffold_15-snap.1311-T1
Couldn't classify 79456, 80010
Sorry, prediction pasa_asmbl_15230.p1 fails validation.
(CCC)	 CC	79456-80010	CG	GAC
Valid prediction for GlimmerHMM_glimmerT_36267-T1
Valid prediction for Augustus_model.g24165.t1
Valid prediction for snap_scaffold_15-snap.1305-T1
Valid prediction for snap_scaffold_15-snap.1290-T1
Valid prediction for snap_scaffold_15-snap.1284-T1
Valid prediction for snap_scaffold_15-snap.1317-T1
Valid prediction for HiQ_model.g24170.t1
Valid prediction for snap_scaffold_15-snap.1285-T1
Valid prediction for CodingQuarry_transcript_18020-T1
Valid prediction for GlimmerHMM_glimmerT_36274-T1
Valid prediction for GlimmerHMM_glimmerT_36259-T1
Valid prediction for snap_scaffold_15-snap.1309-T1
Valid prediction for GlimmerHMM_glimmerT_36272-T1
Valid prediction for snap_scaffold_15-snap.1301-T1
Valid prediction for GlimmerHMM_glimmerT_36268-T1
Valid prediction for snap_scaffold_15-snap.1297-T1
Valid prediction for GlimmerHMM_glimmerT_36255-T1
Valid prediction for CodingQuarry_transcript_18022-T1
Valid prediction for snap_scaffold_15-snap.1296-T1
Valid prediction for GlimmerHMM_glimmerT_36275-T1
Valid prediction for GlimmerHMM_glimmerT_36278-T1
Valid prediction for HiQ_model.g24168.t1
Valid prediction for snap_scaffold_15-snap.1288-T1
Valid prediction for GlimmerHMM_glimmerT_36271-T1
Valid prediction for GlimmerHMM_glimmerT_36258-T1
Valid prediction for GlimmerHMM_glimmerT_36260-T1
Valid prediction for snap_scaffold_15-snap.1287-T1
Valid prediction for GlimmerHMM_glimmerT_36261-T1
Valid prediction for GlimmerHMM_glimmerT_36264-T1
Valid prediction for GlimmerHMM_glimmerT_36262-T1
Valid prediction for Augustus_model.g24164.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_15-snap.1318-T1
Valid prediction for pasa_asmbl_14239.p1
Valid prediction for snap_scaffold_15-snap.1304-T1
Valid prediction for Augustus_model.g24162.t1
Valid prediction for snap_scaffold_15-snap.1302-T1
Valid prediction for GlimmerHMM_glimmerT_36277-T1
Valid prediction for snap_scaffold_15-snap.1295-T1
Valid prediction for GlimmerHMM_glimmerT_36281-T1
Couldn't classify 7180, 7210
Sorry, prediction pasa_asmbl_14243.p1 fails validation.
(GCC)	 AG	7180-7210	GT	AGG
(AGT)	 AG	7791-7934	GT	CGG
(GCA)	 AG	10299-10405	GT	AGG
(GAT)	 AG	10692-10827	GT	AGG
(AGT)	 AG	11527-11555	AG	GAA
-recovered pasa_asmbl_14243.p1, terminal, 11527, 11555
-recovered pasa_asmbl_14243.p1, internal, 7180, 7210
-recovered pasa_asmbl_14243.p1, internal, 7791, 7934
-recovered pasa_asmbl_14243.p1, internal, 10299, 10405
-recovered pasa_asmbl_14243.p1, internal, 10692, 10827
Valid prediction for Augustus_model.g24166.t1
Valid prediction for snap_scaffold_15-snap.1315-T1
Valid prediction for snap_scaffold_15-snap.1281-T1
Valid prediction for Augustus_model.g24167.t1
Valid prediction for GlimmerHMM_glimmerT_36254-T1
Valid prediction for HiQ_model.g24169.t1
Valid prediction for snap_scaffold_15-snap.1316-T1
Valid prediction for CodingQuarry_transcript_18021-T1
Valid prediction for GlimmerHMM_glimmerT_36270-T1
Valid prediction for GlimmerHMM_glimmerT_36265-T1
Valid prediction for snap_scaffold_15-snap.1300-T1
Valid prediction for snap_scaffold_15-snap.1291-T1
Valid prediction for GlimmerHMM_glimmerT_36257-T1
Valid prediction for snap_scaffold_15-snap.1280-T1
Valid prediction for Augustus_model.g24173.t1
Valid prediction for snap_scaffold_15-snap.1289-T1
Valid prediction for snap_scaffold_15-snap.1308-T1
Valid prediction for GlimmerHMM_glimmerT_36263-T1
Valid prediction for snap_scaffold_15-snap.1293-T1
Valid prediction for snap_scaffold_15-snap.1283-T1
Valid prediction for snap_scaffold_15-snap.1298-T1
Valid prediction for snap_scaffold_15-snap.1306-T1
Valid prediction for Augustus_model.g24172.t1
Valid prediction for snap_scaffold_15-snap.1312-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 38147, rend_intergenic: 35170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65237, rend_intergenic: 60440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67190, rend_intergenic: 66193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138017, rend_intergenic: 135745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140552, rend_intergenic: 139829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142891, rend_intergenic: 140594  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159984, rend_intergenic: 156590  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200044, rend_intergenic: 195852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 213808
-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 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 38147, rend_intergenic: 35170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65237, rend_intergenic: 60440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67190, rend_intergenic: 66193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138017, rend_intergenic: 135745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140552, rend_intergenic: 139829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142891, rend_intergenic: 140594  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159984, rend_intergenic: 156590  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200044, rend_intergenic: 195852  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