-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_8084851-8287106

-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_17-snap.1617-T1
Valid prediction for CodingQuarry_transcript_22049-T1
Valid prediction for snap_scaffold_17-snap.1637-T1
Valid prediction for CodingQuarry_transcript_22043-T1
Valid prediction for snap_scaffold_17-snap.1624-T1
Valid prediction for Augustus_model.g27115.t1
Valid prediction for GlimmerHMM_glimmerT_40669-T1
Valid prediction for CodingQuarry_transcript_22046-T1
Valid prediction for Augustus_model.g27110.t1
Valid prediction for snap_scaffold_17-snap.1636-T1
Valid prediction for snap_scaffold_17-snap.1598-T1
Valid prediction for pasa_asmbl_18942.p1
Valid prediction for GlimmerHMM_glimmerT_40666-T1
Valid prediction for Augustus_model.g27118.t1
Valid prediction for Augustus_model.g27111.t1
Valid prediction for HiQ_model.g27108.t1
Valid prediction for GlimmerHMM_glimmerT_40673-T1
Valid prediction for snap_scaffold_17-snap.1630-T1
Couldn't classify 139007, 139177
Sorry, prediction pasa_asmbl_18950.p1 fails validation.
(CAT)	 AA	139007-139177	GT	TCG
(GGC)	 AG	139336-139464	GT	CGG
(GTG)	 AG	139651-139774	GT	TGG
(TGG)	 AG	139930-140114	GA	GAG
-recovered pasa_asmbl_18950.p1, terminal, 139930, 140114
-recovered pasa_asmbl_18950.p1, internal, 139336, 139464
-recovered pasa_asmbl_18950.p1, internal, 139651, 139774
Valid prediction for snap_scaffold_17-snap.1621-T1
Valid prediction for GlimmerHMM_glimmerT_40667-T1
Valid prediction for HiQ_model.g27114.t1
Couldn't classify 111795, 111922
Couldn't classify 112532, 112630
Sorry, prediction pasa_asmbl_18945.p2 fails validation.
(TGG)	 CC	111795-111922	GT	AGG
(TGT)	 AG	112047-112122	GT	AGG
(GAC)	 AG	112214-112435	GT	TGG
(GGC)	 AG	112532-112630	CA	ACC
-recovered pasa_asmbl_18945.p2, internal, 112047, 112122
-recovered pasa_asmbl_18945.p2, internal, 112214, 112435
Couldn't classify 136297, 136543
Sorry, prediction pasa_asmbl_18954.p1 fails validation.
(CTT)	 CT	136297-136543	GT	AGG
(GAA)	 AG	136690-136788	GT	GGG
(GTC)	 AG	137001-137161	GT	AGG
(ATG)	 AG	138598-138812	GT	AGG
(CTT)	 AG	139042-139177	GT	TCG
(GGC)	 AG	139336-139464	GT	CGG
(GTG)	 AG	139651-139774	GT	TGG
(TGG)	 AG	139930-140114	GA	GAG
-recovered pasa_asmbl_18954.p1, initial, 138598, 138812
-recovered pasa_asmbl_18954.p1, terminal, 139930, 140114
-recovered pasa_asmbl_18954.p1, internal, 136690, 136788
-recovered pasa_asmbl_18954.p1, internal, 137001, 137161
-recovered pasa_asmbl_18954.p1, internal, 138598, 138812
-recovered pasa_asmbl_18954.p1, internal, 139042, 139177
-recovered pasa_asmbl_18954.p1, internal, 139336, 139464
-recovered pasa_asmbl_18954.p1, internal, 139651, 139774
Valid prediction for GlimmerHMM_glimmerT_40652-T1
Valid prediction for GlimmerHMM_glimmerT_40657-T1
Valid prediction for CodingQuarry_transcript_22044-T1
Valid prediction for snap_scaffold_17-snap.1610-T1
Valid prediction for GlimmerHMM_glimmerT_40654-T1
Valid prediction for pasa_asmbl_18938.p1
Valid prediction for GlimmerHMM_glimmerT_40647-T1
Valid prediction for snap_scaffold_17-snap.1633-T1
Valid prediction for GlimmerHMM_glimmerT_40661-T1
Valid prediction for GlimmerHMM_glimmerT_40672-T1
Couldn't classify 161485, 161964
Sorry, prediction pasa_asmbl_18959.p1 fails validation.
(ATG)	 CG	161485-161964	GG	CAG
Valid prediction for HiQ_model.g27105.t1
Valid prediction for GlimmerHMM_glimmerT_40653-T1
Valid prediction for GlimmerHMM_glimmerT_40675-T1
Couldn't classify 165029, 165205
Sorry, prediction pasa_asmbl_18960.p1 fails validation.
(TCA)	 TT	165029-165205	GT	AAG
(GTC)	 AG	168033-168257	CC	GAC
-recovered pasa_asmbl_18960.p1, terminal, 168033, 168257
Valid prediction for snap_scaffold_17-snap.1612-T1
Valid prediction for snap_scaffold_17-snap.1625-T1
Valid prediction for snap_scaffold_17-snap.1634-T1
Valid prediction for snap_scaffold_17-snap.1604-T1
Valid prediction for snap_scaffold_17-snap.1609-T1
Valid prediction for snap_scaffold_17-snap.1620-T1
Valid prediction for snap_scaffold_17-snap.1615-T1
Valid prediction for GlimmerHMM_glimmerT_40665-T1
Valid prediction for snap_scaffold_17-snap.1631-T1
Valid prediction for GlimmerHMM_glimmerT_40659-T1
Valid prediction for GlimmerHMM_glimmerT_40648-T1
Valid prediction for Augustus_model.g27117.t1
Valid prediction for snap_scaffold_17-snap.1605-T1
Valid prediction for GlimmerHMM_glimmerT_40670-T1
Valid prediction for snap_scaffold_17-snap.1607-T1
Valid prediction for snap_scaffold_17-snap.1629-T1
Valid prediction for Augustus_model.g27116.t1
Valid prediction for snap_scaffold_17-snap.1602-T1
Couldn't classify 109538, 109651
Couldn't classify 111676, 111734
Sorry, prediction pasa_asmbl_19436.p1 fails validation.
(AAG)	 AC	109538-109651	GT	AGG
(AAC)	 AG	109888-109939	GT	GGG
(AAC)	 AG	110052-110141	GT	CGG
(ATA)	 AG	110263-110400	GT	AGG
(GAC)	 AG	110504-110609	GT	AGG
(CTC)	 AG	110718-110821	GT	ACG
(CTA)	 AG	110918-111027	GT	AGG
(CCG)	 AG	111147-111306	GT	CGG
(GAG)	 AG	111424-111567	GT	AGG
(TCA)	 AG	111676-111734	AG	ACA
-recovered pasa_asmbl_19436.p1, terminal, 110263, 110400
-recovered pasa_asmbl_19436.p1, internal, 109888, 109939
-recovered pasa_asmbl_19436.p1, internal, 110052, 110141
-recovered pasa_asmbl_19436.p1, internal, 110263, 110400
-recovered pasa_asmbl_19436.p1, internal, 110504, 110609
-recovered pasa_asmbl_19436.p1, internal, 110718, 110821
-recovered pasa_asmbl_19436.p1, internal, 110918, 111027
-recovered pasa_asmbl_19436.p1, internal, 111147, 111306
-recovered pasa_asmbl_19436.p1, internal, 111424, 111567

-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_40676-T1
Valid prediction for CodingQuarry_transcript_22048-T1
Valid prediction for Augustus_model.g27103.t1
Valid prediction for GlimmerHMM_glimmerT_40663-T1
Valid prediction for snap_scaffold_17-snap.1619-T1
Valid prediction for GlimmerHMM_glimmerT_40660-T1
Valid prediction for GlimmerHMM_glimmerT_40664-T1
Valid prediction for snap_scaffold_17-snap.1603-T1
Valid prediction for GlimmerHMM_glimmerT_40656-T1
Valid prediction for snap_scaffold_17-snap.1600-T1
Valid prediction for snap_scaffold_17-snap.1618-T1
Couldn't classify 98146, 98232
Sorry, prediction pasa_asmbl_18079.p1 fails validation.
(GGC)	 AA	98146-98232	GT	AGG
(AAG)	 AG	98491-98653	GT	AGG
(AGT)	 AG	98756-98853	GT	TTG
(AGA)	 AG	98958-99026	GT	AGG
(AAT)	 AG	99192-99258	GT	AGG
(GAG)	 AG	99381-99440	GT	TGG
(GGT)	 AG	99584-99780	AT	AGA
-recovered pasa_asmbl_18079.p1, terminal, 99584, 99780
-recovered pasa_asmbl_18079.p1, internal, 98491, 98653
-recovered pasa_asmbl_18079.p1, internal, 98756, 98853
-recovered pasa_asmbl_18079.p1, internal, 98958, 99026
-recovered pasa_asmbl_18079.p1, internal, 99192, 99258
-recovered pasa_asmbl_18079.p1, internal, 99381, 99440
Valid prediction for snap_scaffold_17-snap.1608-T1
Valid prediction for Augustus_model.g27101.t1
Valid prediction for GlimmerHMM_glimmerT_40668-T1
Couldn't classify 108874, 108975
Sorry, prediction pasa_asmbl_18488.p1 fails validation.
(GTT)	 AG	108874-108975	GT	GGG
(GCC)	 AG	109075-109169	GT	AGG
(CGC)	 AG	109309-109408	GT	AGG
(AGG)	 AG	109707-109760	GT	TGG
(AGA)	 AG	109925-109987	TC	GAT
-recovered pasa_asmbl_18488.p1, terminal, 109925, 109987
-recovered pasa_asmbl_18488.p1, internal, 108874, 108975
-recovered pasa_asmbl_18488.p1, internal, 109075, 109169
-recovered pasa_asmbl_18488.p1, internal, 109309, 109408
-recovered pasa_asmbl_18488.p1, internal, 109707, 109760
Valid prediction for snap_scaffold_17-snap.1623-T1
Valid prediction for CodingQuarry_transcript_22045-T1
Valid prediction for GlimmerHMM_glimmerT_40671-T1
Valid prediction for snap_scaffold_17-snap.1626-T1
Valid prediction for snap_scaffold_17-snap.1635-T1
Valid prediction for snap_scaffold_17-snap.1606-T1
Valid prediction for GlimmerHMM_glimmerT_40651-T1
Couldn't classify 119690, 120097
Sorry, prediction pasa_asmbl_18078.p3 fails validation.
(GAG)	 CA	119690-120097	GG	ACG
Valid prediction for GlimmerHMM_glimmerT_40658-T1
Valid prediction for Augustus_model.g27109.t1
Valid prediction for snap_scaffold_17-snap.1622-T1
Valid prediction for snap_scaffold_17-snap.1632-T1
Valid prediction for GlimmerHMM_glimmerT_40645-T1
Valid prediction for snap_scaffold_17-snap.1614-T1
Valid prediction for GlimmerHMM_glimmerT_40674-T1
Valid prediction for Augustus_model.g27119.t1
Valid prediction for GlimmerHMM_glimmerT_40649-T1
Valid prediction for GlimmerHMM_glimmerT_40655-T1
Valid prediction for snap_scaffold_17-snap.1616-T1
Valid prediction for snap_scaffold_17-snap.1601-T1
Valid prediction for snap_scaffold_17-snap.1611-T1
Valid prediction for CodingQuarry_transcript_22047-T1
Valid prediction for GlimmerHMM_glimmerT_40662-T1
Valid prediction for Augustus_model.g27104.t1
Valid prediction for Augustus_model.g27102.t1
Valid prediction for Augustus_model.g27106.t1
Valid prediction for GlimmerHMM_glimmerT_40650-T1
Valid prediction for HiQ_model.g27107.t1
Valid prediction for GlimmerHMM_glimmerT_40646-T1
Valid prediction for Augustus_model.g27113.t1
Valid prediction for snap_scaffold_17-snap.1599-T1
Valid prediction for Augustus_model.g27112.t1
Valid prediction for snap_scaffold_17-snap.1627-T1
Valid prediction for snap_scaffold_17-snap.1613-T1
Valid prediction for snap_scaffold_17-snap.1628-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9931, rend_intergenic: 3923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34528, rend_intergenic: 28979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44358, rend_intergenic: 38085  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61676, rend_intergenic: 56886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70617, rend_intergenic: 63230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75051, rend_intergenic: 74603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85455, rend_intergenic: 79146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88649, rend_intergenic: 86467  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113415, rend_intergenic: 111176  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 202256
-exon list size: 385


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.6    
1.8    
2.1    
2.3    
2.6    
2.8    
3.1    
3.4    
3.6    
3.9    
4.1    
4.4    
4.7    
4.9    
5.2    
5.4    
5.7    
5.9    
6.2    
6.5    
6.7    
7.0    
7.2    
7.5    
7.8    
8.0    
8.3    
8.5    
8.8    
9.0    
9.3    
9.6    
9.8    
10.1    
10.3    
10.6    
10.9    
11.1    
11.4    
11.6    
11.9    
12.1    
12.4    
12.7    
12.9    
13.2    
13.4    
13.7    
14.0    
14.2    
14.5    
14.7    
15.0    
15.2    
15.5    
15.8    
16.0    
16.3    
16.5    
16.8    
17.1    
17.3    
17.6    
17.8    
18.1    
18.3    
18.6    
18.9    
19.1    
19.4    
19.6    
19.9    
20.2    
20.4    
20.7    
20.9    
21.2    
21.4    
21.7    
22.0    
22.2    
22.5    
22.7    
23.0    
23.3    
23.5    
23.8    
24.0    
24.3    
24.5    
24.8    
25.1    
25.3    
25.6    
25.8    
26.1    
26.4    
26.6    
26.9    
27.1    
27.4    
27.6    
27.9    
28.2    
28.4    
28.7    
28.9    
29.2    
29.5    
29.7    
30.0    
30.2    
30.5    
30.7    
31.0    
31.3    
31.5    
31.8    
32.0    
32.3    
32.6    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.6    
34.9    
35.1    
35.4    
35.7    
35.9    
36.2    
36.4    
36.7    
37.0    
37.2    
37.5    
37.7    
38.0    
38.2    
38.5    
38.8    
39.0    
39.3    
39.5    
39.8    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.6    
41.9    
42.1    
42.4    
42.6    
42.9    
43.2    
43.4    
43.7    
43.9    
44.2    
44.4    
44.7    
45.0    
45.2    
45.5    
45.7    
46.0    
46.3    
46.5    
46.8    
47.0    
47.3    
47.5    
47.8    
48.1    
48.3    
48.6    
48.8    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.2    
51.4    
51.7    
51.9    
52.2    
52.5    
52.7    
53.0    
53.2    
53.5    
53.7    
54.0    
54.3    
54.5    
54.8    
55.0    
55.3    
55.6    
55.8    
56.1    
56.3    
56.6    
56.8    
57.1    
57.4    
57.6    
57.9    
58.1    
58.4    
58.7    
58.9    
59.2    
59.4    
59.7    
59.9    
60.2    
60.5    
60.7    
61.0    
61.2    
61.5    
61.8    
62.0    
62.3    
62.5    
62.8    
63.0    
63.3    
63.6    
63.8    
64.1    
64.3    
64.6    
64.9    
65.1    
65.4    
65.6    
65.9    
66.1    
66.4    
66.7    
66.9    
67.2    
67.4    
67.7    
68.0    
68.2    
68.5    
68.7    
69.0    
69.3    
69.5    
69.8    
70.0    
70.3    
70.5    
70.8    
71.1    
71.3    
71.6    
71.8    
72.1    
72.4    
72.6    
72.9    
73.1    
73.4    
73.6    
73.9    
74.2    
74.4    
74.7    
74.9    
75.2    
75.5    
75.7    
76.0    
76.2    
76.5    
76.7    
77.0    
77.3    
77.5    
77.8    
78.0    
78.3    
78.6    
78.8    
79.1    
79.3    
79.6    
79.8    
80.1    
80.4    
80.6    
80.9    
81.1    
81.4    
81.7    
81.9    
82.2    
82.4    
82.7    
82.9    
83.2    
83.5    
83.7    
84.0    
84.2    
84.5    
84.8    
85.0    
85.3    
85.5    
85.8    
86.0    
86.3    
86.6    
86.8    
87.1    
87.3    
87.6    
87.9    
88.1    
88.4    
88.6    
88.9    
89.1    
89.4    
89.7    
89.9    
90.2    
90.4    
90.7    
91.0    
91.2    
91.5    
91.7    
92.0    
92.2    
92.5    
92.8    
93.0    
93.3    
93.5    
93.8    
94.1    
94.3    
94.6    
94.8    
95.1    
95.3    
95.6    
95.9    
96.1    
96.4    
96.6    
96.9    
97.2    
97.4    
97.7    
97.9    
98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 9931, rend_intergenic: 3923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34528, rend_intergenic: 28979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44358, rend_intergenic: 38085  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61676, rend_intergenic: 56886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70617, rend_intergenic: 63230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75051, rend_intergenic: 74603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85455, rend_intergenic: 79146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88649, rend_intergenic: 86467  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113415, rend_intergenic: 111176  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support