-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_7989411-8170546

-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.g24336.t1
Valid prediction for Augustus_model.g24323.t1
Valid prediction for GlimmerHMM_glimmerT_36546-T1
Valid prediction for pasa_asmbl_15318.p1
Valid prediction for Augustus_model.g24333.t1
Valid prediction for snap_scaffold_15-snap.1690-T1
Valid prediction for CodingQuarry_transcript_18065-T1
Valid prediction for snap_scaffold_15-snap.1692-T1
Valid prediction for Augustus_model.g24337.t1
Valid prediction for snap_scaffold_15-snap.1714-T1
Valid prediction for pasa_asmbl_15319.p1
Valid prediction for HiQ_model.g24338.t1
Valid prediction for GlimmerHMM_glimmerT_36541-T1
Valid prediction for GlimmerHMM_glimmerT_36547-T1
Valid prediction for HiQ_model.g24324.t1
Valid prediction for snap_scaffold_15-snap.1698-T1
Couldn't classify 33289, 33669
Sorry, prediction pasa_asmbl_15316.p1 fails validation.
(GAG)	 AT	33289-33669	CA	GAC
Valid prediction for GlimmerHMM_glimmerT_36544-T1
Valid prediction for CodingQuarry_transcript_18064-T1
Valid prediction for snap_scaffold_15-snap.1707-T1
Valid prediction for GlimmerHMM_glimmerT_36545-T1
Valid prediction for snap_scaffold_15-snap.1682-T1
Valid prediction for HiQ_model.g24339.t1
Valid prediction for Augustus_model.g24332.t1
Valid prediction for Augustus_model.g24331.t1
Valid prediction for GlimmerHMM_glimmerT_36527-T1
Couldn't classify 39402, 39507
Sorry, prediction pasa_asmbl_15916.p1 fails validation.
(CGC)	 AC	39402-39507	GT	TGG
(TCA)	 AG	40229-40314	GT	GGG
(GAT)	 AG	40415-40543	GT	TGG
(GTG)	 AG	41023-41120	GT	AAG
(AGA)	 AG	41351-41461	GT	GTG
(TGA)	 AG	41644-41825	GT	AGG
(GCA)	 AG	42343-42469	GT	AGG
(GGA)	 AG	42741-42916	GT	AGG
(CCA)	 AG	43056-43179	GT	AAG
(TAC)	 AG	43361-43553	GT	TGG
(GGT)	 AG	43749-43912	GT	TGG
(GAT)	 AG	44032-44245	AG	AGA
-recovered pasa_asmbl_15916.p1, terminal, 44032, 44245
-recovered pasa_asmbl_15916.p1, internal, 40229, 40314
-recovered pasa_asmbl_15916.p1, internal, 40415, 40543
-recovered pasa_asmbl_15916.p1, internal, 41023, 41120
-recovered pasa_asmbl_15916.p1, internal, 41351, 41461
-recovered pasa_asmbl_15916.p1, internal, 41644, 41825
-recovered pasa_asmbl_15916.p1, internal, 42343, 42469
-recovered pasa_asmbl_15916.p1, internal, 42741, 42916
-recovered pasa_asmbl_15916.p1, internal, 43056, 43179
-recovered pasa_asmbl_15916.p1, internal, 43361, 43553
-recovered pasa_asmbl_15916.p1, internal, 43749, 43912
Valid prediction for GlimmerHMM_glimmerT_36543-T1
Valid prediction for Augustus_model.g24334.t1
Valid prediction for CodingQuarry_transcript_18060-T1
Valid prediction for snap_scaffold_15-snap.1711-T1
Valid prediction for snap_scaffold_15-snap.1701-T1
Valid prediction for snap_scaffold_15-snap.1683-T1
Valid prediction for snap_scaffold_15-snap.1697-T1
Valid prediction for snap_scaffold_15-snap.1712-T1
Valid prediction for pasa_asmbl_15320.p1
Valid prediction for GlimmerHMM_glimmerT_36530-T1
Couldn't classify 35203, 35868
Sorry, prediction pasa_asmbl_15317.p1 fails validation.
(AAT)	 GG	35203-35868	GT	GAG
Valid prediction for snap_scaffold_15-snap.1703-T1
Valid prediction for GlimmerHMM_glimmerT_36532-T1
Valid prediction for GlimmerHMM_glimmerT_36533-T1
Valid prediction for HiQ_model.g24327.t1
Couldn't classify 176896, 177186
Sorry, prediction pasa_asmbl_15323.p1 fails validation.
(AAA)	 CC	176896-177186	GT	AGG
(GTG)	 AG	177380-177484	AG	AGA
-recovered pasa_asmbl_15323.p1, terminal, 177380, 177484
Valid prediction for GlimmerHMM_glimmerT_36540-T1
Valid prediction for GlimmerHMM_glimmerT_36528-T1
Valid prediction for GlimmerHMM_glimmerT_36538-T1
Valid prediction for GlimmerHMM_glimmerT_36536-T1
Valid prediction for CodingQuarry_transcript_18063-T1
Valid prediction for snap_scaffold_15-snap.1686-T1
Valid prediction for snap_scaffold_15-snap.1710-T1
Valid prediction for snap_scaffold_15-snap.1693-T1
Valid prediction for GlimmerHMM_glimmerT_36539-T1
Valid prediction for snap_scaffold_15-snap.1696-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.g24335.t1
Couldn't classify 105372, 105453
Sorry, prediction pasa_asmbl_14329.p2 fails validation.
(AGG)	 TA	105372-105453	GT	AGG
(ACG)	 AG	105675-105704	GT	TGG
(GTG)	 AG	106239-106400	GT	AGG
(ATA)	 AG	106510-106632	GT	AGG
(GTT)	 AG	106830-106945	CA	AAC
-recovered pasa_asmbl_14329.p2, terminal, 106830, 106945
-recovered pasa_asmbl_14329.p2, internal, 105675, 105704
-recovered pasa_asmbl_14329.p2, internal, 106239, 106400
-recovered pasa_asmbl_14329.p2, internal, 106510, 106632
Valid prediction for CodingQuarry_transcript_18059-T1
Valid prediction for Augustus_model.g24329.t1
Valid prediction for snap_scaffold_15-snap.1689-T1
Valid prediction for CodingQuarry_transcript_18058-T1
Valid prediction for snap_scaffold_15-snap.1688-T1
Valid prediction for GlimmerHMM_glimmerT_36534-T1
Couldn't classify 91168, 93529
Couldn't classify 97271, 97380
Sorry, prediction pasa_asmbl_14332.p1 fails validation.
(AGC)	 CC	91168-93529	GT	CGG
(GTA)	 AG	93725-93840	GT	GGG
(GTG)	 AG	94023-94134	GT	TGG
(ACC)	 AG	94255-94629	GT	TGG
(ATG)	 AG	97271-97380	GG	CCG
-recovered pasa_asmbl_14332.p1, internal, 93725, 93840
-recovered pasa_asmbl_14332.p1, internal, 94023, 94134
-recovered pasa_asmbl_14332.p1, internal, 94255, 94629
Valid prediction for snap_scaffold_15-snap.1713-T1
Sorry, intron length (3) is less than minimum required (10)
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_18061-T1
Valid prediction for snap_scaffold_15-snap.1685-T1
Valid prediction for GlimmerHMM_glimmerT_36537-T1
Valid prediction for GlimmerHMM_glimmerT_36531-T1
Valid prediction for GlimmerHMM_glimmerT_36529-T1
Valid prediction for snap_scaffold_15-snap.1709-T1
Valid prediction for snap_scaffold_15-snap.1699-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g24325.t1
Valid prediction for snap_scaffold_15-snap.1706-T1
Valid prediction for snap_scaffold_15-snap.1687-T1
Valid prediction for HiQ_model.g24328.t1
Valid prediction for Augustus_model.g24330.t1
Valid prediction for Augustus_model.g24326.t1
Valid prediction for CodingQuarry_transcript_18062-T1
Couldn't classify 100435, 100672
Couldn't classify 101819, 101928
Sorry, prediction pasa_asmbl_14330.p1 fails validation.
(GCT)	 TA	100435-100672	GT	AGG
(GCT)	 AG	101819-101928	TG	GGT
Valid prediction for pasa_asmbl_14327.p1
Valid prediction for snap_scaffold_15-snap.1708-T1
Valid prediction for snap_scaffold_15-snap.1702-T1
Valid prediction for GlimmerHMM_glimmerT_36526-T1
Valid prediction for snap_scaffold_15-snap.1695-T1
Valid prediction for snap_scaffold_15-snap.1700-T1
Valid prediction for snap_scaffold_15-snap.1705-T1
Valid prediction for snap_scaffold_15-snap.1704-T1
Valid prediction for snap_scaffold_15-snap.1691-T1
Valid prediction for GlimmerHMM_glimmerT_36535-T1
Valid prediction for GlimmerHMM_glimmerT_36542-T1
Valid prediction for snap_scaffold_15-snap.1684-T1
Valid prediction for snap_scaffold_15-snap.1694-T1
Couldn't classify 134316, 134445
Sorry, prediction pasa_asmbl_14325.p1 fails validation.
(AAG)	 CC	134316-134445	GC	AGG
(GAC)	 AG	134566-134688	GT	TGG
(GTA)	 AG	134879-135033	GT	CGG
(GTT)	 AG	135129-135239	GT	AGG
(GTG)	 AG	135352-135522	CT	AGC
-recovered pasa_asmbl_14325.p1, terminal, 135352, 135522
-recovered pasa_asmbl_14325.p1, internal, 134566, 134688
-recovered pasa_asmbl_14325.p1, internal, 134879, 135033
-recovered pasa_asmbl_14325.p1, internal, 135129, 135239

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 35868, rend_intergenic: 15612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66520, rend_intergenic: 60609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72161, rend_intergenic: 68968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93064, rend_intergenic: 75970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98614, rend_intergenic: 93093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125429, rend_intergenic: 107426  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128108, rend_intergenic: 126368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151808, rend_intergenic: 134943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158566, rend_intergenic: 154228  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166764, rend_intergenic: 162011  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178214, rend_intergenic: 172178  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 181136
-exon list size: 413


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.4    
1.7    
1.9    
2.2    
2.4    
2.7    
2.9    
3.1    
3.4    
3.6    
3.9    
4.1    
4.3    
4.6    
4.8    
5.1    
5.3    
5.5    
5.8    
6.0    
6.3    
6.5    
6.7    
7.0    
7.2    
7.5    
7.7    
8.0    
8.2    
8.4    
8.7    
8.9    
9.2    
9.4    
9.6    
9.9    
10.1    
10.4    
10.6    
10.8    
11.1    
11.3    
11.6    
11.8    
12.0    
12.3    
12.5    
12.8    
13.0    
13.3    
13.5    
13.7    
14.0    
14.2    
14.5    
14.7    
14.9    
15.2    
15.4    
15.7    
15.9    
16.1    
16.4    
16.6    
16.9    
17.1    
17.3    
17.6    
17.8    
18.1    
18.3    
18.6    
18.8    
19.0    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
21.0    
21.2    
21.4    
21.7    
21.9    
22.2    
22.4    
22.7    
22.9    
23.1    
23.4    
23.6    
23.9    
24.1    
24.3    
24.6    
24.8    
25.1    
25.3    
25.5    
25.8    
26.0    
26.3    
26.5    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.2    
28.4    
28.7    
28.9    
29.2    
29.4    
29.6    
29.9    
30.1    
30.4    
30.6    
30.8    
31.1    
31.3    
31.6    
31.8    
32.0    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.5    
34.7    
34.9    
35.2    
35.4    
35.7    
35.9    
36.1    
36.4    
36.6    
36.9    
37.1    
37.3    
37.6    
37.8    
38.1    
38.3    
38.6    
38.8    
39.0    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
41.0    
41.2    
41.4    
41.7    
41.9    
42.2    
42.4    
42.7    
42.9    
43.1    
43.4    
43.6    
43.9    
44.1    
44.3    
44.6    
44.8    
45.1    
45.3    
45.5    
45.8    
46.0    
46.3    
46.5    
46.7    
47.0    
47.2    
47.5    
47.7    
48.0    
48.2    
48.4    
48.7    
48.9    
49.2    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.8    
51.1    
51.3    
51.6    
51.8    
52.0    
52.3    
52.5    
52.8    
53.0    
53.3    
53.5    
53.7    
54.0    
54.2    
54.5    
54.7    
54.9    
55.2    
55.4    
55.7    
55.9    
56.1    
56.4    
56.6    
56.9    
57.1    
57.3    
57.6    
57.8    
58.1    
58.3    
58.6    
58.8    
59.0    
59.3    
59.5    
59.8    
60.0    
60.2    
60.5    
60.7    
61.0    
61.2    
61.4    
61.7    
61.9    
62.2    
62.4    
62.7    
62.9    
63.1    
63.4    
63.6    
63.9    
64.1    
64.3    
64.6    
64.8    
65.1    
65.3    
65.5    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.5    
67.7    
68.0    
68.2    
68.4    
68.7    
68.9    
69.2    
69.4    
69.6    
69.9    
70.1    
70.4    
70.6    
70.8    
71.1    
71.3    
71.6    
71.8    
72.0    
72.3    
72.5    
72.8    
73.0    
73.3    
73.5    
73.7    
74.0    
74.2    
74.5    
74.7    
74.9    
75.2    
75.4    
75.7    
75.9    
76.1    
76.4    
76.6    
76.9    
77.1    
77.3    
77.6    
77.8    
78.1    
78.3    
78.6    
78.8    
79.0    
79.3    
79.5    
79.8    
80.0    
80.2    
80.5    
80.7    
81.0    
81.2    
81.4    
81.7    
81.9    
82.2    
82.4    
82.7    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.3    
84.6    
84.8    
85.1    
85.3    
85.5    
85.8    
86.0    
86.3    
86.5    
86.7    
87.0    
87.2    
87.5    
87.7    
88.0    
88.2    
88.4    
88.7    
88.9    
89.2    
89.4    
89.6    
89.9    
90.1    
90.4    
90.6    
90.8    
91.1    
91.3    
91.6    
91.8    
92.0    
92.3    
92.5    
92.8    
93.0    
93.3    
93.5    
93.7    
94.0    
94.2    
94.5    
94.7    
94.9    
95.2    
95.4    
95.7    
95.9    
96.1    
96.4    
96.6    
96.9    
97.1    
97.3    
97.6    
97.8    
98.1    
98.3    
98.6    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 35868, rend_intergenic: 15612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66520, rend_intergenic: 60609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72161, rend_intergenic: 68968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93064, rend_intergenic: 75970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98614, rend_intergenic: 93093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125429, rend_intergenic: 107426  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128108, rend_intergenic: 126368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151808, rend_intergenic: 134943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158566, rend_intergenic: 154228  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166764, rend_intergenic: 162011  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178214, rend_intergenic: 172178  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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