-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_8790393-8956762

-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: +)Couldn't classify 69050, 69076
Couldn't classify 70508, 70595
Sorry, prediction pasa_asmbl_20872.p1 fails validation.
(TGT)	 CG	69050-69076	GT	AGG
(GAG)	 AG	69199-69252	GT	AGG
(TCT)	 AG	69439-69513	GT	AGG
(GCA)	 AG	69962-70093	GT	TGG
(CCG)	 AG	70204-70313	GT	AGG
(TGT)	 AG	70508-70595	CT	GCC
-recovered pasa_asmbl_20872.p1, internal, 69199, 69252
-recovered pasa_asmbl_20872.p1, internal, 69439, 69513
-recovered pasa_asmbl_20872.p1, internal, 69962, 70093
-recovered pasa_asmbl_20872.p1, internal, 70204, 70313
Valid prediction for snap_scaffold_18-snap.1879-T1
Valid prediction for snap_scaffold_18-snap.1867-T1
Valid prediction for GlimmerHMM_glimmerT_42830-T1
Valid prediction for snap_scaffold_18-snap.1865-T1
Valid prediction for snap_scaffold_18-snap.1864-T1
Valid prediction for GlimmerHMM_glimmerT_42829-T1
Valid prediction for HiQ_model.g28569.t1
Valid prediction for GlimmerHMM_glimmerT_42833-T1
Valid prediction for snap_scaffold_18-snap.1854-T1
Valid prediction for snap_scaffold_18-snap.1873-T1
Valid prediction for snap_scaffold_18-snap.1861-T1
Valid prediction for GlimmerHMM_glimmerT_42838-T1
Valid prediction for Augustus_model.g28564.t1
Valid prediction for snap_scaffold_18-snap.1857-T1
Valid prediction for snap_scaffold_18-snap.1878-T1
Valid prediction for snap_scaffold_18-snap.1875-T1
Valid prediction for Augustus_model.g28566.t1
Valid prediction for GlimmerHMM_glimmerT_42823-T1
Valid prediction for snap_scaffold_18-snap.1872-T1
Valid prediction for GlimmerHMM_glimmerT_42834-T1
Valid prediction for GlimmerHMM_glimmerT_42827-T1
Couldn't classify 65252, 65356
Couldn't classify 66304, 66369
Sorry, prediction pasa_asmbl_20870.p1 fails validation.
(AAC)	 TG	65252-65356	GT	AGG
(AGC)	 AG	65779-65920	GT	CGG
(GCA)	 AG	66136-66182	GT	AGG
(ATA)	 AG	66304-66369	AA	ATA
-recovered pasa_asmbl_20870.p1, internal, 65779, 65920
-recovered pasa_asmbl_20870.p1, internal, 66136, 66182
Valid prediction for snap_scaffold_18-snap.1886-T1
Valid prediction for GlimmerHMM_glimmerT_42836-T1
Valid prediction for Augustus_model.g28575.t1
Couldn't classify 67590, 67635
Sorry, prediction pasa_asmbl_20871.p2 fails validation.
(ATG)	 AC	67015-67063	GT	TGG
(GTA)	 AG	67151-67271	GT	CGG
(GAG)	 AG	67374-67505	GT	AGG
(GTT)	 AG	67590-67635	CG	CGC
-recovered pasa_asmbl_20871.p2, initial, 67015, 67063
-recovered pasa_asmbl_20871.p2, internal, 67151, 67271
-recovered pasa_asmbl_20871.p2, internal, 67374, 67505
Valid prediction for snap_scaffold_18-snap.1887-T1
Valid prediction for GlimmerHMM_glimmerT_42824-T1
Valid prediction for CodingQuarry_transcript_23862-T1
Valid prediction for snap_scaffold_18-snap.1882-T1
Valid prediction for GlimmerHMM_glimmerT_42839-T1
Valid prediction for snap_scaffold_18-snap.1868-T1
Valid prediction for GlimmerHMM_glimmerT_42826-T1
Valid prediction for snap_scaffold_18-snap.1856-T1
Valid prediction for snap_scaffold_18-snap.1863-T1
Valid prediction for pasa_asmbl_20869.p1
Valid prediction for snap_scaffold_18-snap.1874-T1
Valid prediction for HiQ_model.g28568.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: -)Couldn't classify 114851, 114994
Couldn't classify 116600, 116794
Sorry, prediction pasa_asmbl_20023.p1 fails validation.
(GAC)	 CG	114851-114994	GT	AGG
(ATC)	 AG	115132-115281	GT	AGG
(GAG)	 AG	115375-115526	GT	AGG
(GGG)	 AG	115729-115823	GT	AGG
(GTG)	 AG	116065-116236	GT	AAG
(GGA)	 AG	116401-116458	GT	AGG
(GTG)	 AG	116600-116794	GT	AGG
-recovered pasa_asmbl_20023.p1, internal, 115132, 115281
-recovered pasa_asmbl_20023.p1, internal, 115375, 115526
-recovered pasa_asmbl_20023.p1, internal, 115729, 115823
-recovered pasa_asmbl_20023.p1, internal, 116065, 116236
-recovered pasa_asmbl_20023.p1, internal, 116401, 116458
-recovered pasa_asmbl_20023.p1, internal, 116600, 116794
Valid prediction for snap_scaffold_18-snap.1855-T1
Valid prediction for snap_scaffold_18-snap.1876-T1
Valid prediction for GlimmerHMM_glimmerT_42825-T1
Valid prediction for GlimmerHMM_glimmerT_42828-T1
Valid prediction for pasa_asmbl_20045.p1
Valid prediction for snap_scaffold_18-snap.1871-T1
Valid prediction for snap_scaffold_18-snap.1884-T1
Couldn't classify 71447, 71589
Sorry, prediction pasa_asmbl_20036.p1 fails validation.
(GTG)	 GA	71447-71589	GT	AGG
(CAC)	 AG	72578-72974	GT	AGG
(GTG)	 AG	74605-74717	GT	AGG
(TCG)	 AG	75079-75346	GT	AGG
(GAG)	 AG	75845-75985	GT	AGG
(ATC)	 AG	77277-77320	GT	AGG
(CTC)	 AG	78207-78282	GT	AGG
(AGG)	 AG	78389-78529	GT	AGG
(GAA)	 AG	78698-78790	GT	CGG
(GAC)	 AG	80494-80562	GT	AGG
(GTG)	 AG	81726-81762	GT	TGG
(GCA)	 AG	83170-83183	TG	AAT
-recovered pasa_asmbl_20036.p1, terminal, 83170, 83183
-recovered pasa_asmbl_20036.p1, internal, 72578, 72974
-recovered pasa_asmbl_20036.p1, internal, 74605, 74717
-recovered pasa_asmbl_20036.p1, internal, 75079, 75346
-recovered pasa_asmbl_20036.p1, internal, 75845, 75985
-recovered pasa_asmbl_20036.p1, internal, 77277, 77320
-recovered pasa_asmbl_20036.p1, internal, 78207, 78282
-recovered pasa_asmbl_20036.p1, internal, 78389, 78529
-recovered pasa_asmbl_20036.p1, internal, 78698, 78790
-recovered pasa_asmbl_20036.p1, internal, 80494, 80562
-recovered pasa_asmbl_20036.p1, internal, 81726, 81762
Valid prediction for snap_scaffold_18-snap.1858-T1
Valid prediction for snap_scaffold_18-snap.1860-T1
Valid prediction for snap_scaffold_18-snap.1862-T1
Valid prediction for GlimmerHMM_glimmerT_42821-T1
Valid prediction for Augustus_model.g28574.t1
Valid prediction for snap_scaffold_18-snap.1866-T1
Valid prediction for pasa_asmbl_20027.p1
Valid prediction for Augustus_model.g28573.t1
Couldn't classify 119964, 120123
Sorry, prediction pasa_asmbl_20022.p1 fails validation.
(GCC)	 TG	119964-120123	GT	GGG
(AGG)	 AG	121021-121292	AG	AGA
-recovered pasa_asmbl_20022.p1, terminal, 121021, 121292
Valid prediction for snap_scaffold_18-snap.1869-T1
Valid prediction for GlimmerHMM_glimmerT_42835-T1
Valid prediction for snap_scaffold_18-snap.1880-T1
Valid prediction for GlimmerHMM_glimmerT_42822-T1
Valid prediction for Augustus_model.g28572.t1
Valid prediction for snap_scaffold_18-snap.1877-T1
Valid prediction for CodingQuarry_transcript_23863-T1
Valid prediction for snap_scaffold_18-snap.1859-T1
Valid prediction for snap_scaffold_18-snap.1870-T1
Valid prediction for GlimmerHMM_glimmerT_42831-T1
Valid prediction for snap_scaffold_18-snap.1885-T1
Valid prediction for Augustus_model.g28565.t1
Valid prediction for snap_scaffold_18-snap.1883-T1
Valid prediction for HiQ_model.g28570.t1
Valid prediction for Augustus_model.g28567.t1
Valid prediction for Augustus_model.g28576.t1
Valid prediction for snap_scaffold_18-snap.1881-T1
Valid prediction for GlimmerHMM_glimmerT_42837-T1
Valid prediction for CodingQuarry_transcript_23864-T1
Valid prediction for CodingQuarry_transcript_23865-T1
Valid prediction for HiQ_model.g28571.t1
Valid prediction for Augustus_model.g28563.t1
Valid prediction for GlimmerHMM_glimmerT_42832-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9002, rend_intergenic: 6958  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21072, rend_intergenic: 11760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41475, rend_intergenic: 21109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46447, rend_intergenic: 45079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52348, rend_intergenic: 46756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70917, rend_intergenic: 67147  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98858, rend_intergenic: 83248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103800, rend_intergenic: 100244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109432, rend_intergenic: 103954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113632, rend_intergenic: 109991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128581, rend_intergenic: 123957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 166370
-exon list size: 347


building trellis

0.3    
0.6    
0.9    
1.1    
1.4    
1.7    
2.0    
2.3    
2.6    
2.9    
3.2    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.4    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.6    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.8    
97.1    
97.4    
97.7    
98.0    
98.3    
98.6    
98.9    
99.1    
99.4    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 9002, rend_intergenic: 6958  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21072, rend_intergenic: 11760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41475, rend_intergenic: 21109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46447, rend_intergenic: 45079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52348, rend_intergenic: 46756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70917, rend_intergenic: 67147  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98858, rend_intergenic: 83248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103800, rend_intergenic: 100244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109432, rend_intergenic: 103954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113632, rend_intergenic: 109991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128581, rend_intergenic: 123957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support