-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_26/scaffold_26_5184584-5341356

-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 GeneMark_model.99478_t
Valid prediction for snap_scaffold_26-snap.1174-T1
Valid prediction for GeneMark_model.99514_t
Valid prediction for snap_scaffold_26-snap.1166-T1
Valid prediction for GlimmerHMM_glimmerT_56989-T1
Valid prediction for GlimmerHMM_glimmerT_56984-T1
Valid prediction for GeneMark_model.99501_t
Valid prediction for snap_scaffold_26-snap.1195-T1
Valid prediction for snap_scaffold_26-snap.1169-T1
Valid prediction for GeneMark_model.99475_t
Valid prediction for GlimmerHMM_glimmerT_56982-T1
Valid prediction for snap_scaffold_26-snap.1172-T1
Valid prediction for pasa_asmbl_35500.p1
Valid prediction for Augustus_model.g37954.t1
Valid prediction for GeneMark_model.99490_t
Valid prediction for GeneMark_model.99505_t
Valid prediction for Augustus_model.g37958.t1
Valid prediction for snap_scaffold_26-snap.1162-T1
Valid prediction for Augustus_model.g37945.t1
Valid prediction for GlimmerHMM_glimmerT_56972-T1
Valid prediction for GlimmerHMM_glimmerT_56973-T1
Couldn't classify 125024, 125158
Couldn't classify 127037, 127156
Sorry, prediction pasa_asmbl_35503.p1 fails validation.
(TTT)	 AG	125024-125158	GT	AGG
(ATT)	 AG	125246-125320	GT	AGG
(GTG)	 AG	125443-125593	GT	AGG
(GTC)	 AG	125749-125945	GT	AGG
(GGC)	 AG	126064-126178	GT	AGG
(CAT)	 AG	126271-126578	GT	AGG
(GTG)	 AG	126698-126937	GT	CGG
(ATG)	 AG	127037-127156	CG	CCC
-recovered pasa_asmbl_35503.p1, internal, 125024, 125158
-recovered pasa_asmbl_35503.p1, internal, 125246, 125320
-recovered pasa_asmbl_35503.p1, internal, 125443, 125593
-recovered pasa_asmbl_35503.p1, internal, 125749, 125945
-recovered pasa_asmbl_35503.p1, internal, 126064, 126178
-recovered pasa_asmbl_35503.p1, internal, 126271, 126578
-recovered pasa_asmbl_35503.p1, internal, 126698, 126937
Valid prediction for GlimmerHMM_glimmerT_56980-T1
Valid prediction for GeneMark_model.99476_t
Valid prediction for snap_scaffold_26-snap.1181-T1
Valid prediction for GeneMark_model.99509_t
Valid prediction for snap_scaffold_26-snap.1185-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.1194-T1
Valid prediction for GeneMark_model.99486_t
Valid prediction for GlimmerHMM_glimmerT_56976-T1
Valid prediction for Augustus_model.g37949.t1
Valid prediction for GlimmerHMM_glimmerT_56983-T1
Valid prediction for CodingQuarry_transcript_40247-T1
Valid prediction for GlimmerHMM_glimmerT_56993-T1
Valid prediction for Augustus_model.g37960.t1
Valid prediction for snap_scaffold_26-snap.1199-T1
Couldn't classify 127420, 127500
Sorry, prediction pasa_asmbl_35504.p1 fails validation.
(CAC)	 CC	127420-127500	GT	AGG
(GGT)	 AG	127637-127738	GT	AGG
(GTG)	 AG	127840-127911	GT	AGG
(GGA)	 AG	128041-128142	GG	AAG
-recovered pasa_asmbl_35504.p1, terminal, 128041, 128142
-recovered pasa_asmbl_35504.p1, internal, 127637, 127738
-recovered pasa_asmbl_35504.p1, internal, 127840, 127911
Valid prediction for HiQ_model.g37957.t1
Valid prediction for snap_scaffold_26-snap.1176-T1
Valid prediction for Augustus_model.g37952.t1
Valid prediction for GeneMark_model.99508_t
Valid prediction for GlimmerHMM_glimmerT_56988-T1
Valid prediction for GlimmerHMM_glimmerT_56992-T1
Valid prediction for GeneMark_model.99496_t
Couldn't classify 132823, 132868
Sorry, prediction pasa_asmbl_35505.p1 fails validation.
(ATG)	 AT	129379-129557	GT	TCG
(GGC)	 AG	131280-131379	GT	AGG
(GTG)	 AG	132337-132444	GT	TGG
(GAG)	 AG	132581-132687	GT	GGG
(GCA)	 AG	132823-132868	CC	GGC
-recovered pasa_asmbl_35505.p1, initial, 129379, 129557
-recovered pasa_asmbl_35505.p1, internal, 131280, 131379
-recovered pasa_asmbl_35505.p1, internal, 132337, 132444
-recovered pasa_asmbl_35505.p1, internal, 132581, 132687
Valid prediction for snap_scaffold_26-snap.1167-T1
Valid prediction for Augustus_model.g37962.t1
Valid prediction for GeneMark_model.99511_t
Valid prediction for GlimmerHMM_glimmerT_56981-T1
Valid prediction for GeneMark_model.99512_t
Valid prediction for CodingQuarry_transcript_40248-T1
Valid prediction for snap_scaffold_26-snap.1160-T1
Valid prediction for GeneMark_model.99491_t
Valid prediction for GeneMark_model.99481_t
Valid prediction for GlimmerHMM_glimmerT_56975-T1
Valid prediction for GeneMark_model.99494_t
Valid prediction for snap_scaffold_26-snap.1189-T1
Valid prediction for Augustus_model.g37947.t1
Valid prediction for GlimmerHMM_glimmerT_56977-T1
Valid prediction for GlimmerHMM_glimmerT_56991-T1
Valid prediction for GeneMark_model.99482_t
Valid prediction for snap_scaffold_26-snap.1157-T1
Valid prediction for snap_scaffold_26-snap.1173-T1
Valid prediction for snap_scaffold_26-snap.1175-T1
Valid prediction for HiQ_model.g37951.t1
Valid prediction for snap_scaffold_26-snap.1183-T1
Valid prediction for GeneMark_model.99473_t
Valid prediction for snap_scaffold_26-snap.1161-T1
Valid prediction for GlimmerHMM_glimmerT_56966-T1
Valid prediction for Augustus_model.g37963.t1
Valid prediction for GlimmerHMM_glimmerT_56968-T1
Valid prediction for snap_scaffold_26-snap.1193-T1
Valid prediction for snap_scaffold_26-snap.1190-T1
Valid prediction for snap_scaffold_26-snap.1178-T1
Valid prediction for GlimmerHMM_glimmerT_56995-T1
Valid prediction for GeneMark_model.99516_t
Valid prediction for Augustus_model.g37961.t1
Valid prediction for GlimmerHMM_glimmerT_56978-T1
Valid prediction for GeneMark_model.99484_t
Valid prediction for snap_scaffold_26-snap.1163-T1
Valid prediction for GlimmerHMM_glimmerT_56969-T1
Valid prediction for Augustus_model.g37955.t1
Valid prediction for snap_scaffold_26-snap.1179-T1
Valid prediction for GeneMark_model.99488_t
Valid prediction for snap_scaffold_26-snap.1196-T1
Valid prediction for GeneMark_model.99499_t

-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 GlimmerHMM_glimmerT_56996-T1
Valid prediction for Augustus_model.g37964.t1
Valid prediction for Augustus_model.g37946.t1
Valid prediction for GlimmerHMM_glimmerT_56986-T1
Valid prediction for snap_scaffold_26-snap.1192-T1
Valid prediction for GeneMark_model.99503_t
Valid prediction for snap_scaffold_26-snap.1197-T1
Valid prediction for GeneMark_model.99504_t
Valid prediction for snap_scaffold_26-snap.1168-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GeneMark_model.99495_t
Valid prediction for GeneMark_model.99487_t
Valid prediction for Augustus_model.g37956.t1
Valid prediction for snap_scaffold_26-snap.1184-T1
Valid prediction for snap_scaffold_26-snap.1187-T1
Valid prediction for GeneMark_model.99502_t
Valid prediction for snap_scaffold_26-snap.1182-T1
Valid prediction for Augustus_model.g37943.t1
Valid prediction for GlimmerHMM_glimmerT_56985-T1
Valid prediction for snap_scaffold_26-snap.1200-T1
Valid prediction for GeneMark_model.99485_t
Valid prediction for GlimmerHMM_glimmerT_56990-T1
Valid prediction for snap_scaffold_26-snap.1164-T1
Valid prediction for GeneMark_model.99480_t
Valid prediction for snap_scaffold_26-snap.1198-T1
Valid prediction for snap_scaffold_26-snap.1159-T1
Valid prediction for GeneMark_model.99472_t
Valid prediction for GeneMark_model.99513_t
Valid prediction for GeneMark_model.99498_t
Valid prediction for snap_scaffold_26-snap.1186-T1
Valid prediction for snap_scaffold_26-snap.1202-T1
Valid prediction for Augustus_model.g37944.t1
Valid prediction for snap_scaffold_26-snap.1158-T1
Valid prediction for GeneMark_model.99477_t
Valid prediction for GlimmerHMM_glimmerT_56994-T1
Valid prediction for GeneMark_model.99493_t
Valid prediction for GlimmerHMM_glimmerT_56971-T1
Valid prediction for GeneMark_model.99507_t
Valid prediction for snap_scaffold_26-snap.1188-T1
Valid prediction for GeneMark_model.99489_t
Valid prediction for snap_scaffold_26-snap.1180-T1
Valid prediction for GlimmerHMM_glimmerT_56970-T1
Valid prediction for GeneMark_model.99515_t
Valid prediction for GeneMark_model.99474_t
Valid prediction for GeneMark_model.99510_t
Valid prediction for Augustus_model.g37959.t1
Valid prediction for snap_scaffold_26-snap.1171-T1
Valid prediction for GeneMark_model.99506_t
Valid prediction for GlimmerHMM_glimmerT_56967-T1
Valid prediction for Augustus_model.g37948.t1
Valid prediction for GeneMark_model.99517_t
Valid prediction for GlimmerHMM_glimmerT_56987-T1
Valid prediction for Augustus_model.g37950.t1
Valid prediction for snap_scaffold_26-snap.1191-T1
Valid prediction for GeneMark_model.99483_t
Valid prediction for GlimmerHMM_glimmerT_56997-T1
Valid prediction for GeneMark_model.99492_t
Valid prediction for GlimmerHMM_glimmerT_56979-T1
Valid prediction for GeneMark_model.99479_t
Valid prediction for snap_scaffold_26-snap.1170-T1
Valid prediction for Augustus_model.g37953.t1
Valid prediction for snap_scaffold_26-snap.1201-T1
Valid prediction for GlimmerHMM_glimmerT_56974-T1
Valid prediction for snap_scaffold_26-snap.1177-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for GeneMark_model.99500_t
Valid prediction for snap_scaffold_26-snap.1165-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9338, rend_intergenic: 5149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14235, rend_intergenic: 10710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27304, rend_intergenic: 25169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36229, rend_intergenic: 28551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41003, rend_intergenic: 40201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54324, rend_intergenic: 52741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77166, rend_intergenic: 71124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88149, rend_intergenic: 81533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100374, rend_intergenic: 95587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142072, rend_intergenic: 138732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147609, rend_intergenic: 146272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149356, rend_intergenic: 147763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156773
-exon list size: 667


building trellis

0.1    
0.3    
0.4    
0.6    
0.7    
0.9    
1.0    
1.2    
1.3    
1.5    
1.6    
1.8    
1.9    
2.1    
2.2    
2.4    
2.5    
2.7    
2.8    
3.0    
3.1    
3.3    
3.4    
3.6    
3.7    
3.9    
4.0    
4.2    
4.3    
4.5    
4.6    
4.8    
4.9    
5.1    
5.2    
5.4    
5.5    
5.7    
5.8    
6.0    
6.1    
6.3    
6.4    
6.6    
6.7    
6.9    
7.0    
7.2    
7.3    
7.5    
7.6    
7.8    
7.9    
8.1    
8.2    
8.4    
8.5    
8.7    
8.8    
9.0    
9.1    
9.3    
9.4    
9.6    
9.7    
9.9    
10.0    
10.2    
10.3    
10.5    
10.6    
10.8    
10.9    
11.1    
11.2    
11.4    
11.5    
11.7    
11.8    
12.0    
12.1    
12.3    
12.4    
12.6    
12.7    
12.9    
13.0    
13.2    
13.3    
13.5    
13.6    
13.8    
13.9    
14.1    
14.2    
14.3    
14.5    
14.6    
14.8    
14.9    
15.1    
15.2    
15.4    
15.5    
15.7    
15.8    
16.0    
16.1    
16.3    
16.4    
16.6    
16.7    
16.9    
17.0    
17.2    
17.3    
17.5    
17.6    
17.8    
17.9    
18.1    
18.2    
18.4    
18.5    
18.7    
18.8    
19.0    
19.1    
19.3    
19.4    
19.6    
19.7    
19.9    
20.0    
20.2    
20.3    
20.5    
20.6    
20.8    
20.9    
21.1    
21.2    
21.4    
21.5    
21.7    
21.8    
22.0    
22.1    
22.3    
22.4    
22.6    
22.7    
22.9    
23.0    
23.2    
23.3    
23.5    
23.6    
23.8    
23.9    
24.1    
24.2    
24.4    
24.5    
24.7    
24.8    
25.0    
25.1    
25.3    
25.4    
25.6    
25.7    
25.9    
26.0    
26.2    
26.3    
26.5    
26.6    
26.8    
26.9    
27.1    
27.2    
27.4    
27.5    
27.7    
27.8    
28.0    
28.1    
28.3    
28.4    
28.6    
28.7    
28.8    
29.0    
29.1    
29.3    
29.4    
29.6    
29.7    
29.9    
30.0    
30.2    
30.3    
30.5    
30.6    
30.8    
30.9    
31.1    
31.2    
31.4    
31.5    
31.7    
31.8    
32.0    
32.1    
32.3    
32.4    
32.6    
32.7    
32.9    
33.0    
33.2    
33.3    
33.5    
33.6    
33.8    
33.9    
34.1    
34.2    
34.4    
34.5    
34.7    
34.8    
35.0    
35.1    
35.3    
35.4    
35.6    
35.7    
35.9    
36.0    
36.2    
36.3    
36.5    
36.6    
36.8    
36.9    
37.1    
37.2    
37.4    
37.5    
37.7    
37.8    
38.0    
38.1    
38.3    
38.4    
38.6    
38.7    
38.9    
39.0    
39.2    
39.3    
39.5    
39.6    
39.8    
39.9    
40.1    
40.2    
40.4    
40.5    
40.7    
40.8    
41.0    
41.1    
41.3    
41.4    
41.6    
41.7    
41.9    
42.0    
42.2    
42.3    
42.5    
42.6    
42.8    
42.9    
43.0    
43.2    
43.3    
43.5    
43.6    
43.8    
43.9    
44.1    
44.2    
44.4    
44.5    
44.7    
44.8    
45.0    
45.1    
45.3    
45.4    
45.6    
45.7    
45.9    
46.0    
46.2    
46.3    
46.5    
46.6    
46.8    
46.9    
47.1    
47.2    
47.4    
47.5    
47.7    
47.8    
48.0    
48.1    
48.3    
48.4    
48.6    
48.7    
48.9    
49.0    
49.2    
49.3    
49.5    
49.6    
49.8    
49.9    
50.1    
50.2    
50.4    
50.5    
50.7    
50.8    
51.0    
51.1    
51.3    
51.4    
51.6    
51.7    
51.9    
52.0    
52.2    
52.3    
52.5    
52.6    
52.8    
52.9    
53.1    
53.2    
53.4    
53.5    
53.7    
53.8    
54.0    
54.1    
54.3    
54.4    
54.6    
54.7    
54.9    
55.0    
55.2    
55.3    
55.5    
55.6    
55.8    
55.9    
56.1    
56.2    
56.4    
56.5    
56.7    
56.8    
57.0    
57.1    
57.2    
57.4    
57.5    
57.7    
57.8    
58.0    
58.1    
58.3    
58.4    
58.6    
58.7    
58.9    
59.0    
59.2    
59.3    
59.5    
59.6    
59.8    
59.9    
60.1    
60.2    
60.4    
60.5    
60.7    
60.8    
61.0    
61.1    
61.3    
61.4    
61.6    
61.7    
61.9    
62.0    
62.2    
62.3    
62.5    
62.6    
62.8    
62.9    
63.1    
63.2    
63.4    
63.5    
63.7    
63.8    
64.0    
64.1    
64.3    
64.4    
64.6    
64.7    
64.9    
65.0    
65.2    
65.3    
65.5    
65.6    
65.8    
65.9    
66.1    
66.2    
66.4    
66.5    
66.7    
66.8    
67.0    
67.1    
67.3    
67.4    
67.6    
67.7    
67.9    
68.0    
68.2    
68.3    
68.5    
68.6    
68.8    
68.9    
69.1    
69.2    
69.4    
69.5    
69.7    
69.8    
70.0    
70.1    
70.3    
70.4    
70.6    
70.7    
70.9    
71.0    
71.2    
71.3    
71.4    
71.6    
71.7    
71.9    
72.0    
72.2    
72.3    
72.5    
72.6    
72.8    
72.9    
73.1    
73.2    
73.4    
73.5    
73.7    
73.8    
74.0    
74.1    
74.3    
74.4    
74.6    
74.7    
74.9    
75.0    
75.2    
75.3    
75.5    
75.6    
75.8    
75.9    
76.1    
76.2    
76.4    
76.5    
76.7    
76.8    
77.0    
77.1    
77.3    
77.4    
77.6    
77.7    
77.9    
78.0    
78.2    
78.3    
78.5    
78.6    
78.8    
78.9    
79.1    
79.2    
79.4    
79.5    
79.7    
79.8    
80.0    
80.1    
80.3    
80.4    
80.6    
80.7    
80.9    
81.0    
81.2    
81.3    
81.5    
81.6    
81.8    
81.9    
82.1    
82.2    
82.4    
82.5    
82.7    
82.8    
83.0    
83.1    
83.3    
83.4    
83.6    
83.7    
83.9    
84.0    
84.2    
84.3    
84.5    
84.6    
84.8    
84.9    
85.1    
85.2    
85.4    
85.5    
85.7    
85.8    
85.9    
86.1    
86.2    
86.4    
86.5    
86.7    
86.8    
87.0    
87.1    
87.3    
87.4    
87.6    
87.7    
87.9    
88.0    
88.2    
88.3    
88.5    
88.6    
88.8    
88.9    
89.1    
89.2    
89.4    
89.5    
89.7    
89.8    
90.0    
90.1    
90.3    
90.4    
90.6    
90.7    
90.9    
91.0    
91.2    
91.3    
91.5    
91.6    
91.8    
91.9    
92.1    
92.2    
92.4    
92.5    
92.7    
92.8    
93.0    
93.1    
93.3    
93.4    
93.6    
93.7    
93.9    
94.0    
94.2    
94.3    
94.5    
94.6    
94.8    
94.9    
95.1    
95.2    
95.4    
95.5    
95.7    
95.8    
96.0    
96.1    
96.3    
96.4    
96.6    
96.7    
96.9    
97.0    
97.2    
97.3    
97.5    
97.6    
97.8    
97.9    
98.1    
98.2    
98.4    
98.5    
98.7    
98.8    
99.0    
99.1    
99.3    
99.4    
99.6    
99.7    
99.9    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 9338, rend_intergenic: 5149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14235, rend_intergenic: 10710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27304, rend_intergenic: 25169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36229, rend_intergenic: 28551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41003, rend_intergenic: 40201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54324, rend_intergenic: 52741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77166, rend_intergenic: 71124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88149, rend_intergenic: 81533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100374, rend_intergenic: 95587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142072, rend_intergenic: 138732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147609, rend_intergenic: 146272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149356, rend_intergenic: 147763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support