-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_6737784-6873147

-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.g30668.t1
Valid prediction for GlimmerHMM_glimmerT_46208-T1
Valid prediction for GlimmerHMM_glimmerT_46200-T1
Valid prediction for snap_scaffold_20-snap.1456-T1
Valid prediction for Augustus_model.g30665.t1
Couldn't classify 35196, 35273
Sorry, prediction pasa_asmbl_26682.p1 fails validation.
(ATG)	 CA	33684-33752	GT	ACG
(GAA)	 AG	33846-33986	GT	AGG
(CCT)	 AG	34285-34373	GT	AGG
(AAA)	 AG	34539-34807	GT	AGG
(GTG)	 AG	34986-35080	GT	CAG
(TCC)	 AG	35196-35273	GT	CCG
-recovered pasa_asmbl_26682.p1, initial, 33684, 33752
-recovered pasa_asmbl_26682.p1, internal, 33846, 33986
-recovered pasa_asmbl_26682.p1, internal, 34285, 34373
-recovered pasa_asmbl_26682.p1, internal, 34539, 34807
-recovered pasa_asmbl_26682.p1, internal, 34986, 35080
-recovered pasa_asmbl_26682.p1, internal, 35196, 35273
Valid prediction for snap_scaffold_20-snap.1471-T1
Valid prediction for snap_scaffold_20-snap.1474-T1
Couldn't classify 14405, 14674
Couldn't classify 18094, 18268
Sorry, prediction pasa_asmbl_26677.p1 fails validation.
(CCC)	 CC	14405-14674	GT	AGG
(ATG)	 AG	14966-15127	GT	AGG
(GTG)	 AG	15804-15886	GT	AGG
(GAT)	 AG	16930-17155	GT	AGG
(GAG)	 AG	17291-17619	GT	AAG
(GTT)	 AG	18094-18268	TG	AGT
-recovered pasa_asmbl_26677.p1, initial, 14966, 15127
-recovered pasa_asmbl_26677.p1, internal, 14966, 15127
-recovered pasa_asmbl_26677.p1, internal, 15804, 15886
-recovered pasa_asmbl_26677.p1, internal, 16930, 17155
-recovered pasa_asmbl_26677.p1, internal, 17291, 17619
Couldn't classify 6845, 7869
Couldn't classify 9612, 9694
Sorry, prediction pasa_asmbl_26674.p1 fails validation.
(GAG)	 CG	6845-7869	GT	AGG
(GTA)	 AG	8672-8796	GT	AGG
(AGA)	 AG	9129-9257	GT	AGG
(AAA)	 AG	9612-9694	GT	CGG
-recovered pasa_asmbl_26674.p1, internal, 8672, 8796
-recovered pasa_asmbl_26674.p1, internal, 9129, 9257
-recovered pasa_asmbl_26674.p1, internal, 9612, 9694
Valid prediction for snap_scaffold_20-snap.1466-T1
Valid prediction for snap_scaffold_20-snap.1459-T1
Valid prediction for Augustus_model.g30660.t1
Valid prediction for GlimmerHMM_glimmerT_46205-T1
Valid prediction for snap_scaffold_20-snap.1469-T1
Valid prediction for GlimmerHMM_glimmerT_46196-T1
Valid prediction for snap_scaffold_20-snap.1458-T1
Valid prediction for GlimmerHMM_glimmerT_46207-T1
Valid prediction for GlimmerHMM_glimmerT_46201-T1
Valid prediction for Augustus_model.g30664.t1
Valid prediction for snap_scaffold_20-snap.1476-T1
Couldn't classify 35355, 35459
Sorry, prediction pasa_asmbl_26684.p2 fails validation.
(TCT)	 TC	35355-35459	GT	TGG
(ACC)	 AG	35648-35881	GT	AGG
(GCG)	 AG	36125-36307	GT	AGG
(GCA)	 AG	36432-36581	GT	AGG
(GAT)	 AG	36854-36943	CA	AAC
-recovered pasa_asmbl_26684.p2, terminal, 36854, 36943
-recovered pasa_asmbl_26684.p2, internal, 35648, 35881
-recovered pasa_asmbl_26684.p2, internal, 36125, 36307
-recovered pasa_asmbl_26684.p2, internal, 36432, 36581
Valid prediction for snap_scaffold_20-snap.1480-T1
Valid prediction for snap_scaffold_20-snap.1473-T1
Valid prediction for HiQ_model.g30659.t1
Valid prediction for GlimmerHMM_glimmerT_46194-T1
Valid prediction for HiQ_model.g30657.t1
Valid prediction for snap_scaffold_20-snap.1464-T1
Valid prediction for Augustus_model.g30670.t1
Valid prediction for snap_scaffold_20-snap.1478-T1
Valid prediction for Augustus_model.g30666.t1
Valid prediction for Augustus_model.g30656.t1
Couldn't classify 10104, 10115
Couldn't classify 12988, 13025
Sorry, prediction pasa_asmbl_26676.p1 fails validation.
(GAA)	 CA	10104-10115	GT	AGG
(AAG)	 AG	10223-10457	GT	AGG
(CAG)	 AG	10657-10812	GT	AGG
(GCG)	 AG	12988-13025	AG	CCA
-recovered pasa_asmbl_26676.p1, internal, 10223, 10457
-recovered pasa_asmbl_26676.p1, internal, 10657, 10812
Couldn't classify 3822, 3916
Couldn't classify 4751, 4832
Couldn't classify 5279, 5387
Couldn't classify 6072, 6514
Sorry, prediction pasa_asmbl_27152.p1 fails validation.
(AAG)	 CC	3822-3916	GT	AGG
(GAC)	 AG	4027-4158	GT	AGG
(GCT)	 AG	4751-4832	AT	CCA
(CGC)	 AC	5279-5387	GT	AGG
(ATG)	 AG	5617-5910	GT	AGG
(GGA)	 AG	6072-6514	AC	GGA
add_exon() Sorry, pasa_asmbl_27152.p1 5617-5910-initial-1 is invalid.
-recovered pasa_asmbl_27152.p1, initial, 5617, 5910
-recovered pasa_asmbl_27152.p1, internal, 4027, 4158
-recovered pasa_asmbl_27152.p1, internal, 5617, 5910

-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.g30672.t1
Valid prediction for snap_scaffold_20-snap.1468-T1
Valid prediction for snap_scaffold_20-snap.1475-T1
Valid prediction for GlimmerHMM_glimmerT_46202-T1
Valid prediction for snap_scaffold_20-snap.1460-T1
Valid prediction for GlimmerHMM_glimmerT_46198-T1
Valid prediction for Augustus_model.g30671.t1
Valid prediction for snap_scaffold_20-snap.1463-T1
Valid prediction for Augustus_model.g30661.t1
Valid prediction for GlimmerHMM_glimmerT_46203-T1
Valid prediction for snap_scaffold_20-snap.1462-T1
Valid prediction for snap_scaffold_20-snap.1465-T1
Valid prediction for snap_scaffold_20-snap.1472-T1
Valid prediction for snap_scaffold_20-snap.1479-T1
Valid prediction for snap_scaffold_20-snap.1477-T1
Valid prediction for Augustus_model.g30669.t1
Valid prediction for GlimmerHMM_glimmerT_46206-T1
Valid prediction for Augustus_model.g30663.t1
Valid prediction for GlimmerHMM_glimmerT_46204-T1
Valid prediction for Augustus_model.g30662.t1
Valid prediction for Augustus_model.g30658.t1
Valid prediction for snap_scaffold_20-snap.1467-T1
Valid prediction for snap_scaffold_20-snap.1454-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.1470-T1
Valid prediction for GlimmerHMM_glimmerT_46197-T1
Valid prediction for snap_scaffold_20-snap.1455-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g30667.t1
Couldn't classify 105262, 105427
Sorry, prediction pasa_asmbl_25851.p2 fails validation.
(GAC)	 TC	105262-105427	GT	GGG
(GGA)	 AG	105648-105835	AG	GAA
-recovered pasa_asmbl_25851.p2, terminal, 105648, 105835
Valid prediction for snap_scaffold_20-snap.1457-T1
Valid prediction for GlimmerHMM_glimmerT_46209-T1
Valid prediction for snap_scaffold_20-snap.1461-T1
Valid prediction for GlimmerHMM_glimmerT_46199-T1
Valid prediction for GlimmerHMM_glimmerT_46195-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 31465, rend_intergenic: 27488  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36943, rend_intergenic: 36068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69546, rend_intergenic: 60228  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82616, rend_intergenic: 76546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94542, rend_intergenic: 89345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103845, rend_intergenic: 95121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112961, rend_intergenic: 110733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125323, rend_intergenic: 122093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134194, rend_intergenic: 130284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 135364
-exon list size: 294


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.0    
3.4    
3.7    
4.1    
4.4    
4.7    
5.1    
5.4    
5.7    
6.1    
6.4    
6.8    
7.1    
7.4    
7.8    
8.1    
8.4    
8.8    
9.1    
9.5    
9.8    
10.1    
10.5    
10.8    
11.1    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.9    
14.2    
14.5    
14.9    
15.2    
15.5    
15.9    
16.2    
16.6    
16.9    
17.2    
17.6    
17.9    
18.2    
18.6    
18.9    
19.3    
19.6    
19.9    
20.3    
20.6    
20.9    
21.3    
21.6    
22.0    
22.3    
22.6    
23.0    
23.3    
23.6    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.4    
26.7    
27.0    
27.4    
27.7    
28.0    
28.4    
28.7    
29.1    
29.4    
29.7    
30.1    
30.4    
30.7    
31.1    
31.4    
31.8    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.5    
34.8    
35.1    
35.5    
35.8    
36.1    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.9    
39.2    
39.5    
39.9    
40.2    
40.5    
40.9    
41.2    
41.6    
41.9    
42.2    
42.6    
42.9    
43.2    
43.6    
43.9    
44.3    
44.6    
44.9    
45.3    
45.6    
45.9    
46.3    
46.6    
47.0    
47.3    
47.6    
48.0    
48.3    
48.6    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.4    
51.7    
52.0    
52.4    
52.7    
53.0    
53.4    
53.7    
54.1    
54.4    
54.7    
55.1    
55.4    
55.7    
56.1    
56.4    
56.8    
57.1    
57.4    
57.8    
58.1    
58.4    
58.8    
59.1    
59.5    
59.8    
60.1    
60.5    
60.8    
61.1    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.9    
64.2    
64.5    
64.9    
65.2    
65.5    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.2    
68.6    
68.9    
69.3    
69.6    
69.9    
70.3    
70.6    
70.9    
71.3    
71.6    
72.0    
72.3    
72.6    
73.0    
73.3    
73.6    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.4    
76.7    
77.0    
77.4    
77.7    
78.0    
78.4    
78.7    
79.1    
79.4    
79.7    
80.1    
80.4    
80.7    
81.1    
81.4    
81.8    
82.1    
82.4    
82.8    
83.1    
83.4    
83.8    
84.1    
84.5    
84.8    
85.1    
85.5    
85.8    
86.1    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.9    
89.2    
89.5    
89.9    
90.2    
90.5    
90.9    
91.2    
91.6    
91.9    
92.2    
92.6    
92.9    
93.2    
93.6    
93.9    
94.3    
94.6    
94.9    
95.3    
95.6    
95.9    
96.3    
96.6    
97.0    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 31465, rend_intergenic: 27488  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36943, rend_intergenic: 36068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69546, rend_intergenic: 60228  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82616, rend_intergenic: 76546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94542, rend_intergenic: 89345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103845, rend_intergenic: 95121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112961, rend_intergenic: 110733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125323, rend_intergenic: 122093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134194, rend_intergenic: 130284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support