-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_5998368-6188089

-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_20-snap.1315-T1
Valid prediction for snap_scaffold_20-snap.1336-T1
Valid prediction for snap_scaffold_20-snap.1314-T1
Valid prediction for CodingQuarry_transcript_30528-T1
Valid prediction for snap_scaffold_20-snap.1334-T1
Valid prediction for snap_scaffold_20-snap.1333-T1
Valid prediction for snap_scaffold_20-snap.1311-T1
Valid prediction for snap_scaffold_20-snap.1335-T1
Valid prediction for GlimmerHMM_glimmerT_46109-T1
Valid prediction for HiQ_model.g30607.t1
Valid prediction for snap_scaffold_20-snap.1298-T1
Valid prediction for snap_scaffold_20-snap.1316-T1
Valid prediction for snap_scaffold_20-snap.1323-T1
Valid prediction for snap_scaffold_20-snap.1304-T1
Valid prediction for snap_scaffold_20-snap.1307-T1
Valid prediction for snap_scaffold_20-snap.1319-T1
Valid prediction for GlimmerHMM_glimmerT_46111-T1
Valid prediction for Augustus_model.g30596.t1
Valid prediction for snap_scaffold_20-snap.1324-T1
Valid prediction for snap_scaffold_20-snap.1331-T1
Valid prediction for snap_scaffold_20-snap.1308-T1
Valid prediction for snap_scaffold_20-snap.1327-T1
Valid prediction for snap_scaffold_20-snap.1329-T1
Valid prediction for snap_scaffold_20-snap.1302-T1
Valid prediction for GlimmerHMM_glimmerT_46103-T1
Valid prediction for GlimmerHMM_glimmerT_46097-T1
Valid prediction for GlimmerHMM_glimmerT_46106-T1
Valid prediction for snap_scaffold_20-snap.1301-T1
Valid prediction for Augustus_model.g30605.t1
Valid prediction for GlimmerHMM_glimmerT_46112-T1
Valid prediction for GlimmerHMM_glimmerT_46096-T1
Valid prediction for GlimmerHMM_glimmerT_46099-T1
Valid prediction for GlimmerHMM_glimmerT_46094-T1
Valid prediction for snap_scaffold_20-snap.1313-T1
Valid prediction for GlimmerHMM_glimmerT_46107-T1
Valid prediction for Augustus_model.g30595.t1
Valid prediction for GlimmerHMM_glimmerT_46091-T1
Valid prediction for CodingQuarry_transcript_30529-T1
Valid prediction for GlimmerHMM_glimmerT_46110-T1
Couldn't classify 183426, 183456
Sorry, prediction pasa_asmbl_26655.p1 fails validation.
(TTG)	 CC	183426-183456	GT	TGG
(GCC)	 AG	183574-183645	GT	GAG
(AGT)	 AG	183746-183787	GT	CAG
(GAG)	 AG	184104-184190	GT	TGG
(AGC)	 AG	184447-184506	GC	ATG
(ACG)	 AG	184622-185154	GG	GAG
-recovered pasa_asmbl_26655.p1, terminal, 184622, 185154
-recovered pasa_asmbl_26655.p1, internal, 183574, 183645
-recovered pasa_asmbl_26655.p1, internal, 183746, 183787
-recovered pasa_asmbl_26655.p1, internal, 184104, 184190
-recovered pasa_asmbl_26655.p1, internal, 184447, 184506
Valid prediction for snap_scaffold_20-snap.1306-T1
Valid prediction for GlimmerHMM_glimmerT_46092-T1
Valid prediction for snap_scaffold_20-snap.1328-T1
Valid prediction for snap_scaffold_20-snap.1322-T1
Valid prediction for Augustus_model.g30606.t1
Valid prediction for snap_scaffold_20-snap.1300-T1
Valid prediction for Augustus_model.g30598.t1
Valid prediction for GlimmerHMM_glimmerT_46113-T1
Valid prediction for pasa_asmbl_27238.p1
Valid prediction for snap_scaffold_20-snap.1299-T1
Valid prediction for GlimmerHMM_glimmerT_46101-T1
Valid prediction for snap_scaffold_20-snap.1320-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.g30601.t1
Valid prediction for snap_scaffold_20-snap.1309-T1
Valid prediction for GlimmerHMM_glimmerT_46108-T1
Valid prediction for GlimmerHMM_glimmerT_46095-T1
Valid prediction for snap_scaffold_20-snap.1305-T1
Valid prediction for Augustus_model.g30597.t1
Valid prediction for snap_scaffold_20-snap.1330-T1
Valid prediction for snap_scaffold_20-snap.1332-T1
Valid prediction for Augustus_model.g30604.t1
Valid prediction for snap_scaffold_20-snap.1326-T1
Valid prediction for snap_scaffold_20-snap.1325-T1
Valid prediction for GlimmerHMM_glimmerT_46100-T1
Valid prediction for Augustus_model.g30591.t1
Couldn't classify 47202, 47351
Couldn't classify 49400, 49468
Sorry, prediction pasa_asmbl_26337.p1 fails validation.
(GCC)	 AG	47202-47351	GT	GGG
(ATT)	 AG	47712-47843	GT	CGG
(GTC)	 AG	48862-48990	GT	AGG
(GGT)	 AG	49400-49468	AG	GGA
-recovered pasa_asmbl_26337.p1, internal, 47202, 47351
-recovered pasa_asmbl_26337.p1, internal, 47712, 47843
-recovered pasa_asmbl_26337.p1, internal, 48862, 48990
Valid prediction for snap_scaffold_20-snap.1310-T1
Valid prediction for Augustus_model.g30602.t1
Valid prediction for Augustus_model.g30594.t1
Valid prediction for snap_scaffold_20-snap.1318-T1
Couldn't classify 49553, 49700
Sorry, prediction pasa_asmbl_25817.p1 fails validation.
(CCG)	 CC	49553-49700	GT	AGG
(ACA)	 AG	49805-49914	GT	AGG
(ATA)	 AG	50171-50360	GT	AGG
(ACG)	 AG	50686-50774	GT	ATG
(GTC)	 AG	50877-50947	GT	AGG
(CTG)	 AG	51516-51687	GT	TGG
(GTC)	 AG	51949-52083	GT	TGG
(TGC)	 AG	52225-52359	GT	AGG
(CTA)	 AG	52959-53210	GT	AGG
(GGC)	 AG	53463-53641	GT	AGG
(GGG)	 AG	55170-55275	AA	AGA
-recovered pasa_asmbl_25817.p1, terminal, 55170, 55275
-recovered pasa_asmbl_25817.p1, internal, 49805, 49914
-recovered pasa_asmbl_25817.p1, internal, 50171, 50360
-recovered pasa_asmbl_25817.p1, internal, 50686, 50774
-recovered pasa_asmbl_25817.p1, internal, 50877, 50947
-recovered pasa_asmbl_25817.p1, internal, 51516, 51687
-recovered pasa_asmbl_25817.p1, internal, 51949, 52083
-recovered pasa_asmbl_25817.p1, internal, 52225, 52359
-recovered pasa_asmbl_25817.p1, internal, 52959, 53210
-recovered pasa_asmbl_25817.p1, internal, 53463, 53641
Valid prediction for GlimmerHMM_glimmerT_46088-T1
Valid prediction for snap_scaffold_20-snap.1321-T1
Valid prediction for Augustus_model.g30592.t1
Valid prediction for Augustus_model.g30603.t1
Valid prediction for snap_scaffold_20-snap.1303-T1
Valid prediction for GlimmerHMM_glimmerT_46098-T1
Valid prediction for GlimmerHMM_glimmerT_46104-T1
Valid prediction for GlimmerHMM_glimmerT_46090-T1
Valid prediction for GlimmerHMM_glimmerT_46105-T1
Valid prediction for snap_scaffold_20-snap.1312-T1
Valid prediction for Augustus_model.g30599.t1
Valid prediction for GlimmerHMM_glimmerT_46102-T1
Couldn't classify 62184, 62296
Sorry, prediction pasa_asmbl_25815.p1 fails validation.
(ATG)	 TT	58623-58666	GT	AGG
(GGA)	 AG	60188-60359	GT	AGG
(CTG)	 AG	60549-60683	GT	AGG
(GTG)	 AG	61803-61842	GT	AGG
(AGT)	 AG	62184-62296	GT	AGG
-recovered pasa_asmbl_25815.p1, initial, 58623, 58666
-recovered pasa_asmbl_25815.p1, internal, 60188, 60359
-recovered pasa_asmbl_25815.p1, internal, 60549, 60683
-recovered pasa_asmbl_25815.p1, internal, 61803, 61842
-recovered pasa_asmbl_25815.p1, internal, 62184, 62296
Valid prediction for GlimmerHMM_glimmerT_46089-T1
Valid prediction for GlimmerHMM_glimmerT_46093-T1
Valid prediction for snap_scaffold_20-snap.1317-T1
Valid prediction for Augustus_model.g30600.t1
Valid prediction for Augustus_model.g30593.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 39136, rend_intergenic: 37661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44198, rend_intergenic: 39360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45392, rend_intergenic: 44480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52443, rend_intergenic: 46988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58142, rend_intergenic: 56201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65050, rend_intergenic: 62481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97203, rend_intergenic: 94454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99553, rend_intergenic: 97785  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126328, rend_intergenic: 101248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153286, rend_intergenic: 133644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169313, rend_intergenic: 167653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172870, rend_intergenic: 170477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 189722
-exon list size: 381


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.6    
1.8    
2.1    
2.3    
2.6    
2.9    
3.1    
3.4    
3.7    
3.9    
4.2    
4.4    
4.7    
5.0    
5.2    
5.5    
5.7    
6.0    
6.3    
6.5    
6.8    
7.0    
7.3    
7.6    
7.8    
8.1    
8.4    
8.6    
8.9    
9.1    
9.4    
9.7    
9.9    
10.2    
10.4    
10.7    
11.0    
11.2    
11.5    
11.7    
12.0    
12.3    
12.5    
12.8    
13.1    
13.3    
13.6    
13.8    
14.1    
14.4    
14.6    
14.9    
15.1    
15.4    
15.7    
15.9    
16.2    
16.4    
16.7    
17.0    
17.2    
17.5    
17.8    
18.0    
18.3    
18.5    
18.8    
19.1    
19.3    
19.6    
19.8    
20.1    
20.4    
20.6    
20.9    
21.1    
21.4    
21.7    
21.9    
22.2    
22.5    
22.7    
23.0    
23.2    
23.5    
23.8    
24.0    
24.3    
24.5    
24.8    
25.1    
25.3    
25.6    
25.8    
26.1    
26.4    
26.6    
26.9    
27.2    
27.4    
27.7    
27.9    
28.2    
28.5    
28.7    
29.0    
29.2    
29.5    
29.8    
30.0    
30.3    
30.5    
30.8    
31.1    
31.3    
31.6    
31.9    
32.1    
32.4    
32.6    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.5    
34.7    
35.0    
35.2    
35.5    
35.8    
36.0    
36.3    
36.6    
36.8    
37.1    
37.3    
37.6    
37.9    
38.1    
38.4    
38.6    
38.9    
39.2    
39.4    
39.7    
39.9    
40.2    
40.5    
40.7    
41.0    
41.3    
41.5    
41.8    
42.0    
42.3    
42.6    
42.8    
43.1    
43.3    
43.6    
43.9    
44.1    
44.4    
44.6    
44.9    
45.2    
45.4    
45.7    
46.0    
46.2    
46.5    
46.7    
47.0    
47.3    
47.5    
47.8    
48.0    
48.3    
48.6    
48.8    
49.1    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
50.9    
51.2    
51.4    
51.7    
52.0    
52.2    
52.5    
52.7    
53.0    
53.3    
53.5    
53.8    
54.0    
54.3    
54.6    
54.8    
55.1    
55.4    
55.6    
55.9    
56.1    
56.4    
56.7    
56.9    
57.2    
57.4    
57.7    
58.0    
58.2    
58.5    
58.7    
59.0    
59.3    
59.5    
59.8    
60.1    
60.3    
60.6    
60.8    
61.1    
61.4    
61.6    
61.9    
62.1    
62.4    
62.7    
62.9    
63.2    
63.4    
63.7    
64.0    
64.2    
64.5    
64.8    
65.0    
65.3    
65.5    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.4    
67.6    
67.9    
68.1    
68.4    
68.7    
68.9    
69.2    
69.5    
69.7    
70.0    
70.2    
70.5    
70.8    
71.0    
71.3    
71.5    
71.8    
72.1    
72.3    
72.6    
72.8    
73.1    
73.4    
73.6    
73.9    
74.2    
74.4    
74.7    
74.9    
75.2    
75.5    
75.7    
76.0    
76.2    
76.5    
76.8    
77.0    
77.3    
77.5    
77.8    
78.1    
78.3    
78.6    
78.9    
79.1    
79.4    
79.6    
79.9    
80.2    
80.4    
80.7    
80.9    
81.2    
81.5    
81.7    
82.0    
82.2    
82.5    
82.8    
83.0    
83.3    
83.6    
83.8    
84.1    
84.3    
84.6    
84.9    
85.1    
85.4    
85.6    
85.9    
86.2    
86.4    
86.7    
86.9    
87.2    
87.5    
87.7    
88.0    
88.3    
88.5    
88.8    
89.0    
89.3    
89.6    
89.8    
90.1    
90.3    
90.6    
90.9    
91.1    
91.4    
91.6    
91.9    
92.2    
92.4    
92.7    
93.0    
93.2    
93.5    
93.7    
94.0    
94.3    
94.5    
94.8    
95.0    
95.3    
95.6    
95.8    
96.1    
96.3    
96.6    
96.9    
97.1    
97.4    
97.7    
97.9    
98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 39136, rend_intergenic: 37661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44198, rend_intergenic: 39360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45392, rend_intergenic: 44480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52443, rend_intergenic: 46988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58142, rend_intergenic: 56201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65050, rend_intergenic: 62481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97203, rend_intergenic: 94454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99553, rend_intergenic: 97785  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126328, rend_intergenic: 101248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153286, rend_intergenic: 133644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169313, rend_intergenic: 167653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172870, rend_intergenic: 170477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support