-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_6905852-6991512

-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_22-snap.1358-T1
Valid prediction for GlimmerHMM_glimmerT_49670-T1
Valid prediction for GlimmerHMM_glimmerT_49669-T1
Valid prediction for Augustus_model.g33129.t1
Valid prediction for GlimmerHMM_glimmerT_49671-T1
Valid prediction for GlimmerHMM_glimmerT_49666-T1
Valid prediction for snap_scaffold_22-snap.1361-T1
Valid prediction for snap_scaffold_22-snap.1356-T1
Valid prediction for snap_scaffold_22-snap.1353-T1
Valid prediction for snap_scaffold_22-snap.1348-T1
Valid prediction for GlimmerHMM_glimmerT_49672-T1
Couldn't classify 42805, 43146
Sorry, prediction pasa_asmbl_30138.p1 fails validation.
(ATG)	 CC	42805-43146	CC	ACC
Valid prediction for CodingQuarry_transcript_34193-T1
Valid prediction for snap_scaffold_22-snap.1354-T1
Couldn't classify 43840, 44344
Couldn't classify 45330, 45364
Sorry, prediction pasa_asmbl_30142.p1 fails validation.
(CCG)	 CG	43840-44344	GT	TGG
(GGA)	 AG	45330-45364	GC	GAG
-recovered pasa_asmbl_30142.p1, internal, 45330, 45364
Valid prediction for Augustus_model.g33132.t1
Valid prediction for Augustus_model.g33134.t1
Couldn't classify 43351, 43692
Sorry, prediction pasa_asmbl_30141.p1 fails validation.
(CGC)	 GG	43351-43692	GT	TGG
Valid prediction for snap_scaffold_22-snap.1347-T1
Couldn't classify 58073, 58384
Sorry, prediction pasa_asmbl_29358.p1 fails validation.
(ATG)	 GC	58073-58384	GG	CCG
Couldn't classify 29429, 29577
Sorry, prediction pasa_asmbl_30137.p1 fails validation.
(GCA)	 AG	29429-29577	GT	CAG
(GGC)	 AG	29771-29893	GT	AGG
(CAT)	 AG	30203-30510	GT	GGG
(GTA)	 AG	30787-30948	GT	CGG
(GGA)	 AG	31361-31500	GT	AGG
(GAT)	 AG	31607-31745	GT	GGG
(GTG)	 AG	31873-32023	GT	AAG
(GTA)	 AG	32241-32356	GT	ATG
(CCT)	 AG	32555-32871	GC	AGG
-recovered pasa_asmbl_30137.p1, terminal, 32555, 32871
-recovered pasa_asmbl_30137.p1, internal, 29429, 29577
-recovered pasa_asmbl_30137.p1, internal, 29771, 29893
-recovered pasa_asmbl_30137.p1, internal, 30203, 30510
-recovered pasa_asmbl_30137.p1, internal, 30787, 30948
-recovered pasa_asmbl_30137.p1, internal, 31361, 31500
-recovered pasa_asmbl_30137.p1, internal, 31607, 31745
-recovered pasa_asmbl_30137.p1, internal, 31873, 32023
-recovered pasa_asmbl_30137.p1, internal, 32241, 32356
-recovered pasa_asmbl_30137.p1, internal, 32555, 32871
Valid prediction for snap_scaffold_22-snap.1352-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 GlimmerHMM_glimmerT_49673-T1
Couldn't classify 34362, 34525
Couldn't classify 34993, 35185
Sorry, prediction CodingQuarry_transcript_34196-T1 fails validation.
(ATG)	 CT	30173-30239	GT	CAG
(CAG)	 AG	30874-31022	GT	AGG
(TCT)	 AG	31218-31406	GT	AGG
(GTG)	 AG	31585-31765	GT	AGG
(TCA)	 AG	31927-32072	GT	TGG
(GTG)	 AG	32492-32599	GT	CTG
(TAT)	 AG	32829-32936	GT	AGG
(CTG)	 AG	33271-33589	GT	GGG
(CAG)	 AG	33716-33816	GT	AGG
(GCG)	 AG	34362-34525	AG	GGA
(TGG)	 GG	34993-35185	GG	GAG
-recovered CodingQuarry_transcript_34196-T1, initial, 30173, 30239
-recovered CodingQuarry_transcript_34196-T1, internal, 30874, 31022
-recovered CodingQuarry_transcript_34196-T1, internal, 31218, 31406
-recovered CodingQuarry_transcript_34196-T1, internal, 31585, 31765
-recovered CodingQuarry_transcript_34196-T1, internal, 31927, 32072
-recovered CodingQuarry_transcript_34196-T1, internal, 32492, 32599
-recovered CodingQuarry_transcript_34196-T1, internal, 32829, 32936
-recovered CodingQuarry_transcript_34196-T1, internal, 33271, 33589
-recovered CodingQuarry_transcript_34196-T1, internal, 33716, 33816
Valid prediction for CodingQuarry_transcript_34192-T1
Couldn't classify 8780, 9241
Sorry, prediction pasa_asmbl_29365.p2 fails validation.
(TCT)	 CT	8780-9241	GG	CTG
Valid prediction for snap_scaffold_22-snap.1351-T1
Couldn't classify 25063, 25272
Sorry, prediction pasa_asmbl_29359.p2 fails validation.
(TCT)	 TT	25063-25272	GT	AGG
(GTG)	 AG	26822-26938	AC	GAA
-recovered pasa_asmbl_29359.p2, terminal, 26822, 26938
Valid prediction for GlimmerHMM_glimmerT_49675-T1
Valid prediction for pasa_asmbl_29361.p1
Valid prediction for HiQ_model.g33136.t1
Valid prediction for Augustus_model.g33137.t1
Valid prediction for CodingQuarry_transcript_34191-T1
Valid prediction for Augustus_model.g33135.t1
Valid prediction for snap_scaffold_22-snap.1362-T1
Valid prediction for CodingQuarry_transcript_34197-T1
Valid prediction for CodingQuarry_transcript_34194-T1
Valid prediction for GlimmerHMM_glimmerT_49674-T1
Valid prediction for snap_scaffold_22-snap.1363-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_22-snap.1364-T1
Valid prediction for snap_scaffold_22-snap.1355-T1
Valid prediction for Augustus_model.g33130.t1
Valid prediction for snap_scaffold_22-snap.1359-T1
Valid prediction for GlimmerHMM_glimmerT_49667-T1
Valid prediction for Augustus_model.g33128.t1
Valid prediction for HiQ_model.g33131.t1
Valid prediction for CodingQuarry_transcript_34195-T1
Valid prediction for snap_scaffold_22-snap.1360-T1
Couldn't classify 31167, 31406
Sorry, prediction pasa_asmbl_29352.p1 fails validation.
(CCT)	 CC	31167-31406	GT	AGG
(GTG)	 AG	31585-31765	GT	AGG
(TCA)	 AG	31927-32072	GT	TGG
(GTG)	 AG	32492-32599	GT	CTG
(TAT)	 AG	32829-32936	GT	AGG
(CTG)	 AG	33271-33589	GT	GGG
(CAG)	 AG	33716-33816	GT	AGG
(GCG)	 AG	34362-34530	GT	AGG
(GTG)	 AG	34992-35185	GG	GAG
-recovered pasa_asmbl_29352.p1, terminal, 34992, 35185
-recovered pasa_asmbl_29352.p1, internal, 31585, 31765
-recovered pasa_asmbl_29352.p1, internal, 31927, 32072
-recovered pasa_asmbl_29352.p1, internal, 32492, 32599
-recovered pasa_asmbl_29352.p1, internal, 32829, 32936
-recovered pasa_asmbl_29352.p1, internal, 33271, 33589
-recovered pasa_asmbl_29352.p1, internal, 33716, 33816
-recovered pasa_asmbl_29352.p1, internal, 34362, 34530
Valid prediction for snap_scaffold_22-snap.1350-T1
Valid prediction for snap_scaffold_22-snap.1357-T1
Couldn't classify 12932, 13084
Couldn't classify 16786, 16890
Sorry, prediction pasa_asmbl_29745.p1 fails validation.
(GCG)	 GA	12932-13084	GT	GGG
(GCA)	 AG	14429-14494	GT	AGG
(ATC)	 AG	14655-14766	GT	CGG
(AAA)	 AG	16463-16533	GT	AGG
(CAC)	 AG	16786-16890	AT	GGA
-recovered pasa_asmbl_29745.p1, internal, 14429, 14494
-recovered pasa_asmbl_29745.p1, internal, 14655, 14766
-recovered pasa_asmbl_29745.p1, internal, 16463, 16533
Valid prediction for snap_scaffold_22-snap.1349-T1
Valid prediction for snap_scaffold_22-snap.1346-T1
Valid prediction for GlimmerHMM_glimmerT_49668-T1
Valid prediction for HiQ_model.g33133.t1
Valid prediction for pasa_asmbl_29346.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15096, rend_intergenic: 10708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33623, rend_intergenic: 27254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48259, rend_intergenic: 43174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52911, rend_intergenic: 50938  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60498, rend_intergenic: 58186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69363, rend_intergenic: 65520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 85661
-exon list size: 210


building trellis

0.5    
0.9    
1.4    
1.9    
2.4    
2.8    
3.3    
3.8    
4.2    
4.7    
5.2    
5.7    
6.1    
6.6    
7.1    
7.5    
8.0    
8.5    
9.0    
9.4    
9.9    
10.4    
10.8    
11.3    
11.8    
12.3    
12.7    
13.2    
13.7    
14.2    
14.6    
15.1    
15.6    
16.0    
16.5    
17.0    
17.5    
17.9    
18.4    
18.9    
19.3    
19.8    
20.3    
20.8    
21.2    
21.7    
22.2    
22.6    
23.1    
23.6    
24.1    
24.5    
25.0    
25.5    
25.9    
26.4    
26.9    
27.4    
27.8    
28.3    
28.8    
29.2    
29.7    
30.2    
30.7    
31.1    
31.6    
32.1    
32.5    
33.0    
33.5    
34.0    
34.4    
34.9    
35.4    
35.8    
36.3    
36.8    
37.3    
37.7    
38.2    
38.7    
39.2    
39.6    
40.1    
40.6    
41.0    
41.5    
42.0    
42.5    
42.9    
43.4    
43.9    
44.3    
44.8    
45.3    
45.8    
46.2    
46.7    
47.2    
47.6    
48.1    
48.6    
49.1    
49.5    
50.0    
50.5    
50.9    
51.4    
51.9    
52.4    
52.8    
53.3    
53.8    
54.2    
54.7    
55.2    
55.7    
56.1    
56.6    
57.1    
57.5    
58.0    
58.5    
59.0    
59.4    
59.9    
60.4    
60.8    
61.3    
61.8    
62.3    
62.7    
63.2    
63.7    
64.2    
64.6    
65.1    
65.6    
66.0    
66.5    
67.0    
67.5    
67.9    
68.4    
68.9    
69.3    
69.8    
70.3    
70.8    
71.2    
71.7    
72.2    
72.6    
73.1    
73.6    
74.1    
74.5    
75.0    
75.5    
75.9    
76.4    
76.9    
77.4    
77.8    
78.3    
78.8    
79.2    
79.7    
80.2    
80.7    
81.1    
81.6    
82.1    
82.5    
83.0    
83.5    
84.0    
84.4    
84.9    
85.4    
85.8    
86.3    
86.8    
87.3    
87.7    
88.2    
88.7    
89.2    
89.6    
90.1    
90.6    
91.0    
91.5    
92.0    
92.5    
92.9    
93.4    
93.9    
94.3    
94.8    
95.3    
95.8    
96.2    
96.7    
97.2    
97.6    
98.1    
98.6    
99.1    
99.5    
-found 13 predictions from path traversal
Error with prediction: snap lend_intergenic: 15096, rend_intergenic: 10708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33623, rend_intergenic: 27254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48259, rend_intergenic: 43174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52911, rend_intergenic: 50938  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60498, rend_intergenic: 58186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69363, rend_intergenic: 65520  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