-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_6292277-6455858

-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_24-snap.1281-T1
Valid prediction for GlimmerHMM_glimmerT_52644-T1
Valid prediction for HiQ_model.g35052.t1
Valid prediction for snap_scaffold_24-snap.1263-T1
Valid prediction for HiQ_model.g35051.t1
Valid prediction for GlimmerHMM_glimmerT_52648-T1
Valid prediction for snap_scaffold_24-snap.1261-T1
Valid prediction for Augustus_model.g35074.t1
Valid prediction for snap_scaffold_24-snap.1271-T1
Valid prediction for GlimmerHMM_glimmerT_52636-T1
Valid prediction for snap_scaffold_24-snap.1276-T1
Valid prediction for CodingQuarry_transcript_37329-T1
Valid prediction for GlimmerHMM_glimmerT_52642-T1
Valid prediction for Augustus_model.g35062.t1
Valid prediction for snap_scaffold_24-snap.1256-T1
Valid prediction for HiQ_model.g35073.t1
Valid prediction for Augustus_model.g35067.t1
Couldn't classify 789, 805
Couldn't classify 2008, 2061
Sorry, prediction pasa_asmbl_32672.p1 fails validation.
(GAC)	 AT	789-805	GT	TGG
(CCA)	 AG	1012-1123	GT	GGG
(CTG)	 AG	1260-1349	GT	AGG
(GCC)	 AG	1444-1630	GT	TGG
(GAG)	 AG	1725-1885	GT	CGG
(CCC)	 AG	2008-2061	GA	ACG
-recovered pasa_asmbl_32672.p1, internal, 1012, 1123
-recovered pasa_asmbl_32672.p1, internal, 1260, 1349
-recovered pasa_asmbl_32672.p1, internal, 1444, 1630
-recovered pasa_asmbl_32672.p1, internal, 1725, 1885
Valid prediction for CodingQuarry_transcript_37334-T1
Valid prediction for Augustus_model.g35054.t1
Valid prediction for GlimmerHMM_glimmerT_52645-T1
Valid prediction for pasa_asmbl_32311.p1
Valid prediction for Augustus_model.g35058.t1
Valid prediction for Augustus_model.g35060.t1
Valid prediction for snap_scaffold_24-snap.1274-T1
Valid prediction for snap_scaffold_24-snap.1282-T1
Valid prediction for pasa_asmbl_32316.p1
Valid prediction for Augustus_model.g35057.t1
Valid prediction for GlimmerHMM_glimmerT_52654-T1
Valid prediction for GlimmerHMM_glimmerT_52633-T1
Valid prediction for snap_scaffold_24-snap.1265-T1
Valid prediction for snap_scaffold_24-snap.1247-T1
Valid prediction for snap_scaffold_24-snap.1252-T1
Valid prediction for snap_scaffold_24-snap.1267-T1
Valid prediction for snap_scaffold_24-snap.1253-T1
Valid prediction for GlimmerHMM_glimmerT_52651-T1
Valid prediction for snap_scaffold_24-snap.1260-T1
Valid prediction for Augustus_model.g35069.t1
Valid prediction for CodingQuarry_transcript_37330-T1
Valid prediction for GlimmerHMM_glimmerT_52649-T1
Valid prediction for Augustus_model.g35061.t1
Valid prediction for snap_scaffold_24-snap.1280-T1
Valid prediction for GlimmerHMM_glimmerT_52634-T1
Valid prediction for GlimmerHMM_glimmerT_52641-T1
Valid prediction for GlimmerHMM_glimmerT_52638-T1
Valid prediction for GlimmerHMM_glimmerT_52643-T1
Valid prediction for Augustus_model.g35063.t1
Valid prediction for pasa_asmbl_32305.p1
Valid prediction for snap_scaffold_24-snap.1254-T1
Valid prediction for snap_scaffold_24-snap.1278-T1
Valid prediction for snap_scaffold_24-snap.1249-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for HiQ_model.g35075.t1
Valid prediction for GlimmerHMM_glimmerT_52655-T1
Valid prediction for snap_scaffold_24-snap.1246-T1
Valid prediction for Augustus_model.g35066.t1
Valid prediction for CodingQuarry_transcript_37337-T1
Valid prediction for CodingQuarry_transcript_37336-T1
Valid prediction for GlimmerHMM_glimmerT_52632-T1
Valid prediction for pasa_asmbl_32300.p1
Valid prediction for CodingQuarry_transcript_37335-T1
Valid prediction for GlimmerHMM_glimmerT_52635-T1
Valid prediction for snap_scaffold_24-snap.1248-T1
Valid prediction for snap_scaffold_24-snap.1269-T1
Valid prediction for pasa_asmbl_32308.p1
Valid prediction for pasa_asmbl_32668.p1
Valid prediction for Augustus_model.g35053.t1
Valid prediction for Augustus_model.g35076.t1
Couldn't classify 31531, 31636
Couldn't classify 34549, 34586
Sorry, prediction pasa_asmbl_32651.p2 fails validation.
(GAG)	 AG	31531-31636	GT	AGG
(GTG)	 AG	32059-32112	GT	AGG
(ATC)	 AG	33450-33586	GT	AGG
(ACG)	 AG	33728-33788	GT	AGG
(ATC)	 AG	34549-34586	TT	CGT
-recovered pasa_asmbl_32651.p2, internal, 31531, 31636
-recovered pasa_asmbl_32651.p2, internal, 32059, 32112
-recovered pasa_asmbl_32651.p2, internal, 33450, 33586
-recovered pasa_asmbl_32651.p2, internal, 33728, 33788

-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_24-snap.1270-T1
Valid prediction for GlimmerHMM_glimmerT_52639-T1
Valid prediction for snap_scaffold_24-snap.1268-T1
Valid prediction for Augustus_model.g35050.t1
Valid prediction for GlimmerHMM_glimmerT_52650-T1
Valid prediction for GlimmerHMM_glimmerT_52656-T1
Valid prediction for GlimmerHMM_glimmerT_52647-T1
Valid prediction for Augustus_model.g35070.t1
Valid prediction for Augustus_model.g35064.t1
Valid prediction for pasa_asmbl_32953.p1
Couldn't classify 155590, 155629
Couldn't classify 156105, 156344
Sorry, prediction pasa_asmbl_32952.p1 fails validation.
(TCA)	 AC	155590-155629	GT	TGG
(ACT)	 AG	155906-155985	GT	AGG
(ACA)	 AG	156105-156344	CT	GCC
-recovered pasa_asmbl_32952.p1, internal, 155906, 155985
Valid prediction for snap_scaffold_24-snap.1259-T1
Couldn't classify 27351, 27493
Sorry, prediction pasa_asmbl_32956.p1 fails validation.
(ATG)	 AC	25361-25481	GT	CCG
(TCG)	 AG	25945-26012	GT	AGG
(GTG)	 AG	26149-26279	GT	GAG
(GTA)	 AG	26447-26594	GT	TGG
(GTC)	 AG	26964-27090	GT	AAG
(GAG)	 AG	27351-27493	GT	ACG
-recovered pasa_asmbl_32956.p1, initial, 25361, 25481
-recovered pasa_asmbl_32956.p1, internal, 25945, 26012
-recovered pasa_asmbl_32956.p1, internal, 26149, 26279
-recovered pasa_asmbl_32956.p1, internal, 26447, 26594
-recovered pasa_asmbl_32956.p1, internal, 26964, 27090
-recovered pasa_asmbl_32956.p1, internal, 27351, 27493
Valid prediction for snap_scaffold_24-snap.1264-T1
Valid prediction for GlimmerHMM_glimmerT_52646-T1
Valid prediction for snap_scaffold_24-snap.1251-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_52631-T1
Valid prediction for snap_scaffold_24-snap.1266-T1
Valid prediction for snap_scaffold_24-snap.1262-T1
Valid prediction for snap_scaffold_24-snap.1258-T1
Valid prediction for CodingQuarry_transcript_37333-T1
Couldn't classify 27882, 27950
Couldn't classify 28945, 29046
Sorry, prediction pasa_asmbl_32955.p1 fails validation.
(AGC)	 AA	27882-27950	GT	AGG
(GCC)	 AG	28402-28560	GT	CTG
(GGG)	 AG	28945-29046	TA	CCT
-recovered pasa_asmbl_32955.p1, internal, 28402, 28560
Valid prediction for snap_scaffold_24-snap.1255-T1
Valid prediction for Augustus_model.g35059.t1
Valid prediction for Augustus_model.g35055.t1
Valid prediction for GlimmerHMM_glimmerT_52637-T1
Valid prediction for CodingQuarry_transcript_37332-T1
Valid prediction for CodingQuarry_transcript_37331-T1
Valid prediction for snap_scaffold_24-snap.1275-T1
Valid prediction for Augustus_model.g35065.t1
Valid prediction for snap_scaffold_24-snap.1273-T1
Valid prediction for snap_scaffold_24-snap.1279-T1
Valid prediction for snap_scaffold_24-snap.1244-T1
Valid prediction for GlimmerHMM_glimmerT_52652-T1
Valid prediction for HiQ_model.g35056.t1
Valid prediction for snap_scaffold_24-snap.1272-T1
Valid prediction for snap_scaffold_24-snap.1245-T1
Valid prediction for pasa_asmbl_32958.p1
Valid prediction for GlimmerHMM_glimmerT_52640-T1
Valid prediction for HiQ_model.g35072.t1
Valid prediction for Augustus_model.g35071.t1
Valid prediction for Augustus_model.g35068.t1
Valid prediction for GlimmerHMM_glimmerT_52653-T1
Valid prediction for snap_scaffold_24-snap.1277-T1
Valid prediction for snap_scaffold_24-snap.1257-T1
Valid prediction for snap_scaffold_24-snap.1250-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 37747, rend_intergenic: 26896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38814, rend_intergenic: 38046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62758, rend_intergenic: 51474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67482, rend_intergenic: 63529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73572, rend_intergenic: 70497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86299, rend_intergenic: 77267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89448, rend_intergenic: 87529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92455, rend_intergenic: 91200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102547, rend_intergenic: 93549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116333, rend_intergenic: 107299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123626, rend_intergenic: 122385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133727, rend_intergenic: 128203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138222, rend_intergenic: 134559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 163582
-exon list size: 490


building trellis

0.2    
0.4    
0.6    
0.8    
1.0    
1.2    
1.4    
1.6    
1.8    
2.0    
2.2    
2.4    
2.6    
2.8    
3.0    
3.3    
3.5    
3.7    
3.9    
4.1    
4.3    
4.5    
4.7    
4.9    
5.1    
5.3    
5.5    
5.7    
5.9    
6.1    
6.3    
6.5    
6.7    
6.9    
7.1    
7.3    
7.5    
7.7    
7.9    
8.1    
8.3    
8.5    
8.7    
8.9    
9.1    
9.3    
9.6    
9.8    
10.0    
10.2    
10.4    
10.6    
10.8    
11.0    
11.2    
11.4    
11.6    
11.8    
12.0    
12.2    
12.4    
12.6    
12.8    
13.0    
13.2    
13.4    
13.6    
13.8    
14.0    
14.2    
14.4    
14.6    
14.8    
15.0    
15.2    
15.4    
15.7    
15.9    
16.1    
16.3    
16.5    
16.7    
16.9    
17.1    
17.3    
17.5    
17.7    
17.9    
18.1    
18.3    
18.5    
18.7    
18.9    
19.1    
19.3    
19.5    
19.7    
19.9    
20.1    
20.3    
20.5    
20.7    
20.9    
21.1    
21.3    
21.5    
21.7    
22.0    
22.2    
22.4    
22.6    
22.8    
23.0    
23.2    
23.4    
23.6    
23.8    
24.0    
24.2    
24.4    
24.6    
24.8    
25.0    
25.2    
25.4    
25.6    
25.8    
26.0    
26.2    
26.4    
26.6    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
28.0    
28.3    
28.5    
28.7    
28.9    
29.1    
29.3    
29.5    
29.7    
29.9    
30.1    
30.3    
30.5    
30.7    
30.9    
31.1    
31.3    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.7    
33.9    
34.1    
34.3    
34.6    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
37.0    
37.2    
37.4    
37.6    
37.8    
38.0    
38.2    
38.4    
38.6    
38.8    
39.0    
39.2    
39.4    
39.6    
39.8    
40.0    
40.2    
40.4    
40.7    
40.9    
41.1    
41.3    
41.5    
41.7    
41.9    
42.1    
42.3    
42.5    
42.7    
42.9    
43.1    
43.3    
43.5    
43.7    
43.9    
44.1    
44.3    
44.5    
44.7    
44.9    
45.1    
45.3    
45.5    
45.7    
45.9    
46.1    
46.3    
46.5    
46.7    
47.0    
47.2    
47.4    
47.6    
47.8    
48.0    
48.2    
48.4    
48.6    
48.8    
49.0    
49.2    
49.4    
49.6    
49.8    
50.0    
50.2    
50.4    
50.6    
50.8    
51.0    
51.2    
51.4    
51.6    
51.8    
52.0    
52.2    
52.4    
52.6    
52.8    
53.0    
53.3    
53.5    
53.7    
53.9    
54.1    
54.3    
54.5    
54.7    
54.9    
55.1    
55.3    
55.5    
55.7    
55.9    
56.1    
56.3    
56.5    
56.7    
56.9    
57.1    
57.3    
57.5    
57.7    
57.9    
58.1    
58.3    
58.5    
58.7    
58.9    
59.1    
59.3    
59.6    
59.8    
60.0    
60.2    
60.4    
60.6    
60.8    
61.0    
61.2    
61.4    
61.6    
61.8    
62.0    
62.2    
62.4    
62.6    
62.8    
63.0    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.4    
64.6    
64.8    
65.0    
65.2    
65.4    
65.7    
65.9    
66.1    
66.3    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.7    
68.9    
69.1    
69.3    
69.5    
69.7    
69.9    
70.1    
70.3    
70.5    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.4    
73.6    
73.8    
74.0    
74.2    
74.4    
74.6    
74.8    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.8    
77.0    
77.2    
77.4    
77.6    
77.8    
78.0    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.7    
79.9    
80.1    
80.3    
80.5    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
81.9    
82.1    
82.3    
82.5    
82.7    
82.9    
83.1    
83.3    
83.5    
83.7    
83.9    
84.1    
84.3    
84.6    
84.8    
85.0    
85.2    
85.4    
85.6    
85.8    
86.0    
86.2    
86.4    
86.6    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.6    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.7    
90.9    
91.1    
91.3    
91.5    
91.7    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
97.0    
97.2    
97.4    
97.6    
97.8    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 37747, rend_intergenic: 26896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38814, rend_intergenic: 38046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62758, rend_intergenic: 51474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67482, rend_intergenic: 63529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73572, rend_intergenic: 70497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86299, rend_intergenic: 77267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89448, rend_intergenic: 87529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92455, rend_intergenic: 91200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102547, rend_intergenic: 93549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116333, rend_intergenic: 107299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123626, rend_intergenic: 122385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133727, rend_intergenic: 128203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138222, rend_intergenic: 134559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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