-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_6638528-7066009

-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 419919, 419987
Couldn't classify 423556, 423651
Sorry, prediction pasa_asmbl_16319.p1 fails validation.
(GAT)	 AG	419919-419987	GT	AGG
(CTG)	 AG	420291-420497	GT	CGG
(AGC)	 AG	420652-420795	GT	AGG
(CAA)	 AG	420999-421187	GT	AGG
(CAC)	 AG	421388-421505	GT	GGG
(AGA)	 AG	421746-421801	GT	AAG
(GAT)	 AG	421945-422054	GT	GAG
(TCT)	 AG	422284-422385	GT	ACG
(GGT)	 AG	422479-422539	GT	TGG
(GCC)	 AG	422631-422702	GT	AGG
(AGT)	 AG	423556-423651	CA	TCC
-recovered pasa_asmbl_16319.p1, internal, 419919, 419987
-recovered pasa_asmbl_16319.p1, internal, 420291, 420497
-recovered pasa_asmbl_16319.p1, internal, 420652, 420795
-recovered pasa_asmbl_16319.p1, internal, 420999, 421187
-recovered pasa_asmbl_16319.p1, internal, 421388, 421505
-recovered pasa_asmbl_16319.p1, internal, 421746, 421801
-recovered pasa_asmbl_16319.p1, internal, 421945, 422054
-recovered pasa_asmbl_16319.p1, internal, 422284, 422385
-recovered pasa_asmbl_16319.p1, internal, 422479, 422539
-recovered pasa_asmbl_16319.p1, internal, 422631, 422702
Valid prediction for snap_scaffold_16-snap.1274-T1
Valid prediction for snap_scaffold_16-snap.1260-T1
Valid prediction for GlimmerHMM_glimmerT_38506-T1
Valid prediction for GlimmerHMM_glimmerT_38488-T1
Valid prediction for Augustus_model.g25696.t1
Valid prediction for snap_scaffold_16-snap.1265-T1
Valid prediction for snap_scaffold_16-snap.1272-T1
Couldn't classify 418988, 419028
Couldn't classify 419543, 419688
Sorry, prediction pasa_asmbl_16318.p3 fails validation.
(AAC)	 TC	418988-419028	GT	AGG
(AGC)	 AG	419148-419296	GT	CGG
(GCG)	 AG	419543-419688	AA	AGA
-recovered pasa_asmbl_16318.p3, internal, 419148, 419296
Valid prediction for snap_scaffold_16-snap.1263-T1
Couldn't classify 389234, 389272
Sorry, prediction pasa_asmbl_16315.p1 fails validation.
(CCG)	 TA	389234-389272	GT	CGG
(GAG)	 AG	390629-390788	GT	GCG
(CTT)	 AG	391437-391582	GT	AGG
(GCG)	 AG	391881-392087	GT	AGG
(AAC)	 AG	392236-392384	GT	AGG
(GAA)	 AG	393190-393343	GT	AGG
(CCG)	 AG	393942-394100	GT	AGG
(GTC)	 AG	394276-394365	GT	CTG
(TCT)	 AG	394605-394753	GT	AGG
(GGT)	 AG	395214-395638	GT	CGG
(TTT)	 AG	398270-398394	GT	AGG
(ATC)	 AG	398525-398666	GT	AGG
(GTG)	 AG	398866-399190	GT	AGG
(GGA)	 AG	399402-399474	TG	AGT
-recovered pasa_asmbl_16315.p1, terminal, 399402, 399474
-recovered pasa_asmbl_16315.p1, internal, 390629, 390788
-recovered pasa_asmbl_16315.p1, internal, 391437, 391582
-recovered pasa_asmbl_16315.p1, internal, 391881, 392087
-recovered pasa_asmbl_16315.p1, internal, 392236, 392384
-recovered pasa_asmbl_16315.p1, internal, 393190, 393343
-recovered pasa_asmbl_16315.p1, internal, 393942, 394100
-recovered pasa_asmbl_16315.p1, internal, 394276, 394365
-recovered pasa_asmbl_16315.p1, internal, 394605, 394753
-recovered pasa_asmbl_16315.p1, internal, 395214, 395638
-recovered pasa_asmbl_16315.p1, internal, 398270, 398394
-recovered pasa_asmbl_16315.p1, internal, 398525, 398666
-recovered pasa_asmbl_16315.p1, internal, 398866, 399190
Valid prediction for snap_scaffold_16-snap.1268-T1
Valid prediction for snap_scaffold_16-snap.1273-T1
Valid prediction for Augustus_model.g25700.t1
Valid prediction for Augustus_model.g25695.t1
Valid prediction for snap_scaffold_16-snap.1285-T1
Valid prediction for GlimmerHMM_glimmerT_38503-T1
Valid prediction for snap_scaffold_16-snap.1257-T1
Valid prediction for GlimmerHMM_glimmerT_38504-T1
Valid prediction for snap_scaffold_16-snap.1288-T1
Valid prediction for snap_scaffold_16-snap.1283-T1
Valid prediction for snap_scaffold_16-snap.1276-T1
Valid prediction for snap_scaffold_16-snap.1286-T1
Valid prediction for GlimmerHMM_glimmerT_38494-T1
Valid prediction for Augustus_model.g25694.t1
Valid prediction for snap_scaffold_16-snap.1264-T1
Valid prediction for snap_scaffold_16-snap.1271-T1
Valid prediction for snap_scaffold_16-snap.1275-T1
Valid prediction for GlimmerHMM_glimmerT_38509-T1
Valid prediction for snap_scaffold_16-snap.1255-T1
Valid prediction for Augustus_model.g25707.t1
Valid prediction for GlimmerHMM_glimmerT_38498-T1
Valid prediction for GlimmerHMM_glimmerT_38490-T1
Valid prediction for Augustus_model.g25703.t1
Valid prediction for snap_scaffold_16-snap.1278-T1
Valid prediction for Augustus_model.g25704.t1
Valid prediction for Augustus_model.g25699.t1
Valid prediction for Augustus_model.g25708.t1
Valid prediction for Augustus_model.g25705.t1
Valid prediction for GlimmerHMM_glimmerT_38501-T1
Valid prediction for GlimmerHMM_glimmerT_38508-T1
Valid prediction for GlimmerHMM_glimmerT_38499-T1
Valid prediction for snap_scaffold_16-snap.1282-T1
Valid prediction for GlimmerHMM_glimmerT_38489-T1
Valid prediction for snap_scaffold_16-snap.1270-T1
Valid prediction for pasa_asmbl_16316.p1
Valid prediction for snap_scaffold_16-snap.1281-T1
Valid prediction for GlimmerHMM_glimmerT_38493-T1
Valid prediction for GlimmerHMM_glimmerT_38492-T1
Valid prediction for GlimmerHMM_glimmerT_38505-T1
Valid prediction for Augustus_model.g25702.t1
Valid prediction for snap_scaffold_16-snap.1256-T1
Valid prediction for snap_scaffold_16-snap.1258-T1
Valid prediction for snap_scaffold_16-snap.1266-T1
Valid prediction for GlimmerHMM_glimmerT_38491-T1
Valid prediction for snap_scaffold_16-snap.1269-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_38497-T1
Valid prediction for GlimmerHMM_glimmerT_38500-T1
Valid prediction for GlimmerHMM_glimmerT_38502-T1
Valid prediction for snap_scaffold_16-snap.1284-T1
Valid prediction for snap_scaffold_16-snap.1262-T1
Valid prediction for snap_scaffold_16-snap.1261-T1
Valid prediction for snap_scaffold_16-snap.1277-T1
Valid prediction for snap_scaffold_16-snap.1279-T1
Valid prediction for GlimmerHMM_glimmerT_38496-T1
Valid prediction for GlimmerHMM_glimmerT_38507-T1
Valid prediction for snap_scaffold_16-snap.1254-T1
Valid prediction for Augustus_model.g25698.t1
Valid prediction for Augustus_model.g25701.t1
Valid prediction for GlimmerHMM_glimmerT_38495-T1
Valid prediction for snap_scaffold_16-snap.1259-T1
Valid prediction for Augustus_model.g25697.t1
Valid prediction for snap_scaffold_16-snap.1267-T1
Valid prediction for snap_scaffold_16-snap.1280-T1
Valid prediction for snap_scaffold_16-snap.1287-T1
Valid prediction for Augustus_model.g25706.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 421621, rend_intergenic: 421115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 423082, rend_intergenic: 421760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 427482
-exon list size: 287


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.1    
2.4    
2.8    
3.1    
3.5    
3.8    
4.2    
4.5    
4.8    
5.2    
5.5    
5.9    
6.2    
6.6    
6.9    
7.3    
7.6    
8.0    
8.3    
8.7    
9.0    
9.3    
9.7    
10.0    
10.4    
10.7    
11.1    
11.4    
11.8    
12.1    
12.5    
12.8    
13.1    
13.5    
13.8    
14.2    
14.5    
14.9    
15.2    
15.6    
15.9    
16.3    
16.6    
17.0    
17.3    
17.6    
18.0    
18.3    
18.7    
19.0    
19.4    
19.7    
20.1    
20.4    
20.8    
21.1    
21.5    
21.8    
22.1    
22.5    
22.8    
23.2    
23.5    
23.9    
24.2    
24.6    
24.9    
25.3    
25.6    
26.0    
26.3    
26.6    
27.0    
27.3    
27.7    
28.0    
28.4    
28.7    
29.1    
29.4    
29.8    
30.1    
30.4    
30.8    
31.1    
31.5    
31.8    
32.2    
32.5    
32.9    
33.2    
33.6    
33.9    
34.3    
34.6    
34.9    
35.3    
35.6    
36.0    
36.3    
36.7    
37.0    
37.4    
37.7    
38.1    
38.4    
38.8    
39.1    
39.4    
39.8    
40.1    
40.5    
40.8    
41.2    
41.5    
41.9    
42.2    
42.6    
42.9    
43.3    
43.6    
43.9    
44.3    
44.6    
45.0    
45.3    
45.7    
46.0    
46.4    
46.7    
47.1    
47.4    
47.8    
48.1    
48.4    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.6    
51.9    
52.2    
52.6    
52.9    
53.3    
53.6    
54.0    
54.3    
54.7    
55.0    
55.4    
55.7    
56.1    
56.4    
56.7    
57.1    
57.4    
57.8    
58.1    
58.5    
58.8    
59.2    
59.5    
59.9    
60.2    
60.6    
60.9    
61.2    
61.6    
61.9    
62.3    
62.6    
63.0    
63.3    
63.7    
64.0    
64.4    
64.7    
65.1    
65.4    
65.7    
66.1    
66.4    
66.8    
67.1    
67.5    
67.8    
68.2    
68.5    
68.9    
69.2    
69.6    
69.9    
70.2    
70.6    
70.9    
71.3    
71.6    
72.0    
72.3    
72.7    
73.0    
73.4    
73.7    
74.0    
74.4    
74.7    
75.1    
75.4    
75.8    
76.1    
76.5    
76.8    
77.2    
77.5    
77.9    
78.2    
78.5    
78.9    
79.2    
79.6    
79.9    
80.3    
80.6    
81.0    
81.3    
81.7    
82.0    
82.4    
82.7    
83.0    
83.4    
83.7    
84.1    
84.4    
84.8    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.2    
87.5    
87.9    
88.2    
88.6    
88.9    
89.3    
89.6    
90.0    
90.3    
90.7    
91.0    
91.3    
91.7    
92.0    
92.4    
92.7    
93.1    
93.4    
93.8    
94.1    
94.5    
94.8    
95.2    
95.5    
95.8    
96.2    
96.5    
96.9    
97.2    
97.6    
97.9    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 421621, rend_intergenic: 421115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 423082, rend_intergenic: 421760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 48380
-exon list size: 5


building trellis

14.3    
28.6    
42.9    
57.1    
71.4    
85.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support
	-no exons in range 1 - 10675

-building DP trellis

-building trellis in range 10715 - 48380
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 10715 - 40748
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
80.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support
	-no exons in range 10715 - 21633

-building DP trellis

-building trellis in range 21717 - 40748
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 24903 - 40748
-exon list size: 1


building trellis

33.3    
66.7    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support
	-no exons in range 24903 - 36209