-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_7626438-7945423

-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 pasa_asmbl_21489.p1
Valid prediction for Augustus_model.g29427.t1
Valid prediction for snap_scaffold_19-snap.1500-T1
Valid prediction for GlimmerHMM_glimmerT_44405-T1
Valid prediction for snap_scaffold_19-snap.1490-T1
Valid prediction for GlimmerHMM_glimmerT_44399-T1
Valid prediction for HiQ_model.g29432.t1
Valid prediction for GlimmerHMM_glimmerT_44377-T1
Valid prediction for GlimmerHMM_glimmerT_44398-T1
Valid prediction for GlimmerHMM_glimmerT_44379-T1
Valid prediction for GlimmerHMM_glimmerT_44395-T1
Valid prediction for CodingQuarry_transcript_25712-T1
Valid prediction for Augustus_model.g29424.t1
Valid prediction for pasa_asmbl_21493.p1
Valid prediction for Augustus_model.g29422.t1
Valid prediction for GlimmerHMM_glimmerT_44375-T1
Valid prediction for GlimmerHMM_glimmerT_44402-T1
Valid prediction for GlimmerHMM_glimmerT_44401-T1
Valid prediction for snap_scaffold_19-snap.1492-T1
Valid prediction for GlimmerHMM_glimmerT_44391-T1
Valid prediction for snap_scaffold_19-snap.1496-T1
Valid prediction for GlimmerHMM_glimmerT_44385-T1
Valid prediction for Augustus_model.g29425.t1
Valid prediction for snap_scaffold_19-snap.1516-T1
Valid prediction for snap_scaffold_19-snap.1506-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_44381-T1
Valid prediction for snap_scaffold_19-snap.1494-T1
Valid prediction for snap_scaffold_19-snap.1507-T1
Valid prediction for Augustus_model.g29429.t1
Valid prediction for Augustus_model.g29433.t1
Valid prediction for CodingQuarry_transcript_25707-T1
Valid prediction for GlimmerHMM_glimmerT_44386-T1
Valid prediction for snap_scaffold_19-snap.1520-T1
Valid prediction for snap_scaffold_19-snap.1504-T1
Valid prediction for CodingQuarry_transcript_25710-T1
Valid prediction for GlimmerHMM_glimmerT_44403-T1
Valid prediction for GlimmerHMM_glimmerT_44378-T1
Valid prediction for GlimmerHMM_glimmerT_44388-T1
Valid prediction for CodingQuarry_transcript_25711-T1
Valid prediction for HiQ_model.g29440.t1
Valid prediction for GlimmerHMM_glimmerT_44382-T1
Valid prediction for snap_scaffold_19-snap.1512-T1
Valid prediction for snap_scaffold_19-snap.1498-T1
Valid prediction for GlimmerHMM_glimmerT_44393-T1
Valid prediction for CodingQuarry_transcript_25714-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 snap_scaffold_19-snap.1493-T1
Valid prediction for GlimmerHMM_glimmerT_44394-T1
Valid prediction for GlimmerHMM_glimmerT_44389-T1
Valid prediction for Augustus_model.g29435.t1
Valid prediction for GlimmerHMM_glimmerT_44383-T1
Valid prediction for GlimmerHMM_glimmerT_44374-T1
Valid prediction for Augustus_model.g29426.t1
Valid prediction for HiQ_model.g29443.t1
Valid prediction for snap_scaffold_19-snap.1501-T1
Valid prediction for Augustus_model.g29441.t1
Couldn't classify 61410, 61627
Sorry, prediction pasa_asmbl_22265.p1 fails validation.
(ATG)	 TG	61149-61281	GT	AGG
(GTG)	 AG	61410-61627	CC	CCC
-recovered pasa_asmbl_22265.p1, initial, 61149, 61281
Valid prediction for pasa_asmbl_22267.p1
Valid prediction for GlimmerHMM_glimmerT_44406-T1
Valid prediction for snap_scaffold_19-snap.1495-T1
Valid prediction for snap_scaffold_19-snap.1523-T1
Valid prediction for snap_scaffold_19-snap.1525-T1
Valid prediction for snap_scaffold_19-snap.1491-T1
Valid prediction for snap_scaffold_19-snap.1503-T1
Couldn't classify 224491, 224776
Couldn't classify 224915, 225303
Sorry, prediction pasa_asmbl_22745.p1 fails validation.
(CCC)	 AT	224491-224776	GT	TGG
(GGG)	 AG	224915-225303	GG	GGG
Valid prediction for GlimmerHMM_glimmerT_44380-T1
Valid prediction for HiQ_model.g29428.t1
Valid prediction for Augustus_model.g29438.t1
Valid prediction for snap_scaffold_19-snap.1497-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g29439.t1
Valid prediction for GlimmerHMM_glimmerT_44384-T1
Valid prediction for snap_scaffold_19-snap.1522-T1
Valid prediction for GlimmerHMM_glimmerT_44407-T1
Valid prediction for snap_scaffold_19-snap.1521-T1
Valid prediction for Augustus_model.g29444.t1
Valid prediction for GlimmerHMM_glimmerT_44404-T1
Valid prediction for snap_scaffold_19-snap.1508-T1
Valid prediction for snap_scaffold_19-snap.1524-T1
Valid prediction for snap_scaffold_19-snap.1513-T1
Valid prediction for snap_scaffold_19-snap.1505-T1
Valid prediction for snap_scaffold_19-snap.1515-T1
Valid prediction for Augustus_model.g29434.t1
Valid prediction for snap_scaffold_19-snap.1510-T1
Couldn't classify 225529, 225830
Couldn't classify 225981, 226089
Sorry, prediction pasa_asmbl_22259.p1 fails validation.
(AAC)	 TG	225529-225830	GT	AGG
(CTT)	 AG	225981-226089	GA	ACG
Couldn't classify 226165, 226596
Sorry, prediction pasa_asmbl_22258.p1 fails validation.
(GAG)	 AG	226165-226596	CT	TCC
Valid prediction for GlimmerHMM_glimmerT_44376-T1
Valid prediction for GlimmerHMM_glimmerT_44387-T1
Valid prediction for snap_scaffold_19-snap.1499-T1
Valid prediction for snap_scaffold_19-snap.1502-T1
Couldn't classify 199654, 199823
Sorry, prediction pasa_asmbl_22260.p1 fails validation.
(GGC)	 CA	199654-199823	GT	CTG
(GTT)	 AG	200135-200398	GT	AGG
(GAC)	 AG	202247-202366	GT	GGG
(GTA)	 AG	205340-205435	GT	AAG
(GGA)	 AG	206610-206667	GT	AGG
(AAT)	 AG	207827-207904	GT	AGG
(CCT)	 AG	208008-208133	CT	AAC
-recovered pasa_asmbl_22260.p1, terminal, 208008, 208133
-recovered pasa_asmbl_22260.p1, internal, 200135, 200398
-recovered pasa_asmbl_22260.p1, internal, 202247, 202366
-recovered pasa_asmbl_22260.p1, internal, 205340, 205435
-recovered pasa_asmbl_22260.p1, internal, 206610, 206667
-recovered pasa_asmbl_22260.p1, internal, 207827, 207904
Couldn't classify 249748, 251727
Sorry, prediction pasa_asmbl_22256.p1 fails validation.
(CAT)	 CA	249748-251727	GC	GAG
Valid prediction for Augustus_model.g29436.t1
Valid prediction for Augustus_model.g29431.t1
Valid prediction for snap_scaffold_19-snap.1509-T1
Couldn't classify 256832, 257040
Couldn't classify 259099, 259224
Sorry, prediction pasa_asmbl_22254.p1 fails validation.
(GCG)	 CA	256832-257040	GT	AGG
(GTC)	 AG	257942-258149	GT	GGG
(ACA)	 AG	259099-259224	AA	AGA
-recovered pasa_asmbl_22254.p1, internal, 257942, 258149
Valid prediction for Augustus_model.g29423.t1
Valid prediction for GlimmerHMM_glimmerT_44400-T1
Valid prediction for Augustus_model.g29437.t1
Valid prediction for GlimmerHMM_glimmerT_44392-T1
Valid prediction for snap_scaffold_19-snap.1514-T1
Valid prediction for GlimmerHMM_glimmerT_44390-T1
Valid prediction for GlimmerHMM_glimmerT_44396-T1
Valid prediction for CodingQuarry_transcript_25708-T1
Valid prediction for pasa_asmbl_22250.p1
Valid prediction for Augustus_model.g29430.t1
Valid prediction for snap_scaffold_19-snap.1519-T1
Valid prediction for GlimmerHMM_glimmerT_44373-T1
Valid prediction for snap_scaffold_19-snap.1518-T1
Valid prediction for Augustus_model.g29442.t1
Valid prediction for snap_scaffold_19-snap.1511-T1
Valid prediction for CodingQuarry_transcript_25715-T1
Valid prediction for snap_scaffold_19-snap.1517-T1
Valid prediction for GlimmerHMM_glimmerT_44397-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 34083, rend_intergenic: 31380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 318986
-exon list size: 313


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.2    
2.5    
2.9    
3.2    
3.5    
3.8    
4.1    
4.4    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.7    
7.0    
7.3    
7.6    
7.9    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.1    
12.4    
12.7    
13.0    
13.3    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.4    
19.7    
20.0    
20.3    
20.6    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.7    
27.0    
27.3    
27.6    
27.9    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.1    
32.4    
32.7    
33.0    
33.3    
33.7    
34.0    
34.3    
34.6    
34.9    
35.2    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.4    
39.7    
40.0    
40.3    
40.6    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.7    
47.0    
47.3    
47.6    
47.9    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.1    
52.4    
52.7    
53.0    
53.3    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.4    
59.7    
60.0    
60.3    
60.6    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.8    
65.1    
65.4    
65.7    
66.0    
66.3    
66.7    
67.0    
67.3    
67.6    
67.9    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.1    
72.4    
72.7    
73.0    
73.3    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.4    
79.7    
80.0    
80.3    
80.6    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
86.7    
87.0    
87.3    
87.6    
87.9    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.1    
92.4    
92.7    
93.0    
93.3    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.5    
97.8    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 34083, rend_intergenic: 31380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 30 predictions persist after filtering for low support