-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_2168712-2320297

-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_20-snap.490-T1
Valid prediction for snap_scaffold_20-snap.479-T1
Valid prediction for snap_scaffold_20-snap.472-T1
Valid prediction for GlimmerHMM_glimmerT_45574-T1
Valid prediction for Augustus_model.g30279.t1
Valid prediction for snap_scaffold_20-snap.477-T1
Valid prediction for snap_scaffold_20-snap.475-T1
Valid prediction for snap_scaffold_20-snap.470-T1
Valid prediction for GlimmerHMM_glimmerT_45561-T1
Valid prediction for snap_scaffold_20-snap.491-T1
Valid prediction for GlimmerHMM_glimmerT_45564-T1
Valid prediction for snap_scaffold_20-snap.493-T1
Valid prediction for GlimmerHMM_glimmerT_45573-T1
Valid prediction for snap_scaffold_20-snap.474-T1
Valid prediction for GlimmerHMM_glimmerT_45566-T1
Valid prediction for GlimmerHMM_glimmerT_45570-T1
Couldn't classify 110116, 110430
Sorry, prediction pasa_asmbl_26478.p1 fails validation.
(ATG)	 TG	108478-108739	GT	AGG
(GGC)	 AG	108852-109007	GT	AGG
(GTA)	 AG	109106-109295	GT	CGG
(CTA)	 AG	109586-109736	GT	AGG
(GTA)	 AG	110116-110430	TT	GCT
-recovered pasa_asmbl_26478.p1, initial, 108478, 108739
-recovered pasa_asmbl_26478.p1, internal, 108852, 109007
-recovered pasa_asmbl_26478.p1, internal, 109106, 109295
-recovered pasa_asmbl_26478.p1, internal, 109586, 109736
Valid prediction for GlimmerHMM_glimmerT_45572-T1
Valid prediction for CodingQuarry_transcript_30453-T1
Valid prediction for Augustus_model.g30282.t1
Valid prediction for Augustus_model.g30281.t1
Valid prediction for snap_scaffold_20-snap.495-T1
Valid prediction for Augustus_model.g30274.t1
Couldn't classify 67879, 67992
Couldn't classify 68308, 68493
Sorry, prediction pasa_asmbl_27140.p2 fails validation.
(GAC)	 CA	67879-67992	GT	TGG
(ATA)	 AG	68308-68493	GA	CCG
Valid prediction for snap_scaffold_20-snap.499-T1
Valid prediction for GlimmerHMM_glimmerT_45557-T1
Valid prediction for CodingQuarry_transcript_30454-T1
Valid prediction for Augustus_model.g30277.t1
Valid prediction for snap_scaffold_20-snap.480-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_45556-T1
Couldn't classify 120219, 120312
Sorry, prediction pasa_asmbl_26480.p1 fails validation.
(CTC)	 AG	120219-120312	GT	GGG
(GTC)	 AG	120977-121023	GT	AGG
(CTC)	 AG	121236-121429	GT	TGG
(GGC)	 AG	121707-121810	GT	TAG
(GTC)	 AG	121979-122148	GT	AGG
(ACG)	 AG	122248-122358	GT	GGG
(CGT)	 AG	123314-123439	CC	GAC
-recovered pasa_asmbl_26480.p1, terminal, 123314, 123439
-recovered pasa_asmbl_26480.p1, internal, 120219, 120312
-recovered pasa_asmbl_26480.p1, internal, 120977, 121023
-recovered pasa_asmbl_26480.p1, internal, 121236, 121429
-recovered pasa_asmbl_26480.p1, internal, 121707, 121810
-recovered pasa_asmbl_26480.p1, internal, 121979, 122148
-recovered pasa_asmbl_26480.p1, internal, 122248, 122358
Valid prediction for snap_scaffold_20-snap.471-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_20-snap.488-T1
Valid prediction for snap_scaffold_20-snap.469-T1
Valid prediction for CodingQuarry_transcript_30452-T1
Valid prediction for Augustus_model.g30276.t1
Valid prediction for GlimmerHMM_glimmerT_45569-T1
Valid prediction for Augustus_model.g30280.t1
Valid prediction for snap_scaffold_20-snap.486-T1
Valid prediction for Augustus_model.g30275.t1
Valid prediction for GlimmerHMM_glimmerT_45568-T1
Valid prediction for GlimmerHMM_glimmerT_45575-T1
Valid prediction for snap_scaffold_20-snap.494-T1
Valid prediction for Augustus_model.g30283.t1
Valid prediction for snap_scaffold_20-snap.498-T1
Valid prediction for snap_scaffold_20-snap.483-T1
Valid prediction for snap_scaffold_20-snap.473-T1
Valid prediction for snap_scaffold_20-snap.497-T1
Valid prediction for snap_scaffold_20-snap.476-T1
Valid prediction for GlimmerHMM_glimmerT_45567-T1
Valid prediction for snap_scaffold_20-snap.478-T1
Valid prediction for snap_scaffold_20-snap.484-T1
Valid prediction for Augustus_model.g30284.t1
Valid prediction for GlimmerHMM_glimmerT_45565-T1
Valid prediction for snap_scaffold_20-snap.492-T1
Valid prediction for snap_scaffold_20-snap.489-T1
Valid prediction for snap_scaffold_20-snap.482-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.496-T1
Couldn't classify 98614, 98727
Sorry, prediction pasa_asmbl_25637.p1 fails validation.
(TCT)	 TC	98614-98727	GT	AGG
(AGG)	 AG	100057-100221	GT	AGG
(AAC)	 AG	100512-100658	GT	AGG
(GTT)	 AG	100866-100928	TC	AGT
-recovered pasa_asmbl_25637.p1, terminal, 100866, 100928
-recovered pasa_asmbl_25637.p1, internal, 100057, 100221
-recovered pasa_asmbl_25637.p1, internal, 100512, 100658
Valid prediction for GlimmerHMM_glimmerT_45571-T1
Valid prediction for GlimmerHMM_glimmerT_45559-T1
Valid prediction for Augustus_model.g30278.t1
Valid prediction for CodingQuarry_transcript_30451-T1
Valid prediction for snap_scaffold_20-snap.500-T1
Valid prediction for GlimmerHMM_glimmerT_45558-T1
Valid prediction for GlimmerHMM_glimmerT_45563-T1
Couldn't classify 110475, 110644
Couldn't classify 113077, 113199
Sorry, prediction pasa_asmbl_25635.p1 fails validation.
(GGA)	 GG	110475-110644	GT	AGG
(CCC)	 AG	110792-110982	GT	AGG
(GAC)	 AG	111151-111217	GT	AAG
(GAC)	 AG	111787-111902	GT	GGG
(GTG)	 AG	112639-112688	GT	TGG
(GCC)	 AG	113077-113199	GG	AGG
-recovered pasa_asmbl_25635.p1, internal, 110792, 110982
-recovered pasa_asmbl_25635.p1, internal, 111151, 111217
-recovered pasa_asmbl_25635.p1, internal, 111787, 111902
-recovered pasa_asmbl_25635.p1, internal, 112639, 112688
Valid prediction for snap_scaffold_20-snap.481-T1
Valid prediction for snap_scaffold_20-snap.487-T1
Valid prediction for GlimmerHMM_glimmerT_45562-T1
Valid prediction for snap_scaffold_20-snap.485-T1
Couldn't classify 91032, 91223
Couldn't classify 94647, 94712
Sorry, prediction pasa_asmbl_26301.p1 fails validation.
(TCC)	 GC	91032-91223	GT	GGG
(ATC)	 AG	91366-91511	GT	CTG
(CCT)	 AG	91956-92121	GT	CGG
(GAG)	 AG	92236-92332	GT	GGG
(ACG)	 AG	92488-92607	GT	TGG
(GCC)	 AG	93055-93173	GT	AGG
(GAC)	 AG	93292-93423	GT	TGG
(GAC)	 AG	93611-93721	GT	AGG
(GTG)	 AG	94151-94264	GT	TCG
(GAC)	 AG	94647-94712	AC	AGA
-recovered pasa_asmbl_26301.p1, internal, 91366, 91511
-recovered pasa_asmbl_26301.p1, internal, 91956, 92121
-recovered pasa_asmbl_26301.p1, internal, 92236, 92332
-recovered pasa_asmbl_26301.p1, internal, 92488, 92607
-recovered pasa_asmbl_26301.p1, internal, 93055, 93173
-recovered pasa_asmbl_26301.p1, internal, 93292, 93423
-recovered pasa_asmbl_26301.p1, internal, 93611, 93721
-recovered pasa_asmbl_26301.p1, internal, 94151, 94264
Valid prediction for GlimmerHMM_glimmerT_45560-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6775, rend_intergenic: 2530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32035, rend_intergenic: 18218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41995, rend_intergenic: 32209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44700, rend_intergenic: 42106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61223, rend_intergenic: 47951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105625, rend_intergenic: 65160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108030, rend_intergenic: 106944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112134, rend_intergenic: 109210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125342, rend_intergenic: 116089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126451, rend_intergenic: 125593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137752, rend_intergenic: 126554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147571, rend_intergenic: 145236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 151586
-exon list size: 395


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.0    
2.3    
2.5    
2.8    
3.0    
3.3    
3.5    
3.8    
4.0    
4.3    
4.5    
4.8    
5.0    
5.3    
5.5    
5.8    
6.0    
6.3    
6.5    
6.8    
7.1    
7.3    
7.6    
7.8    
8.1    
8.3    
8.6    
8.8    
9.1    
9.3    
9.6    
9.8    
10.1    
10.3    
10.6    
10.8    
11.1    
11.3    
11.6    
11.8    
12.1    
12.3    
12.6    
12.8    
13.1    
13.4    
13.6    
13.9    
14.1    
14.4    
14.6    
14.9    
15.1    
15.4    
15.6    
15.9    
16.1    
16.4    
16.6    
16.9    
17.1    
17.4    
17.6    
17.9    
18.1    
18.4    
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    
21.9    
22.2    
22.4    
22.7    
22.9    
23.2    
23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.2    
28.5    
28.7    
29.0    
29.2    
29.5    
29.7    
30.0    
30.2    
30.5    
30.7    
31.0    
31.2    
31.5    
31.7    
32.0    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.3    
35.5    
35.8    
36.0    
36.3    
36.5    
36.8    
37.0    
37.3    
37.5    
37.8    
38.0    
38.3    
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    
41.8    
42.1    
42.3    
42.6    
42.8    
43.1    
43.3    
43.6    
43.8    
44.1    
44.3    
44.6    
44.8    
45.1    
45.3    
45.6    
45.8    
46.1    
46.3    
46.6    
46.9    
47.1    
47.4    
47.6    
47.9    
48.1    
48.4    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.1    
51.4    
51.6    
51.9    
52.1    
52.4    
52.6    
52.9    
53.1    
53.4    
53.7    
53.9    
54.2    
54.4    
54.7    
54.9    
55.2    
55.4    
55.7    
55.9    
56.2    
56.4    
56.7    
56.9    
57.2    
57.4    
57.7    
57.9    
58.2    
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    
61.7    
62.0    
62.2    
62.5    
62.7    
63.0    
63.2    
63.5    
63.7    
64.0    
64.2    
64.5    
64.7    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.0    
68.3    
68.5    
68.8    
69.0    
69.3    
69.5    
69.8    
70.0    
70.3    
70.5    
70.8    
71.0    
71.3    
71.5    
71.8    
72.0    
72.3    
72.5    
72.8    
73.0    
73.3    
73.6    
73.8    
74.1    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.1    
77.3    
77.6    
77.8    
78.1    
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    
81.6    
81.9    
82.1    
82.4    
82.6    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.4    
84.6    
84.9    
85.1    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
86.9    
87.2    
87.4    
87.7    
87.9    
88.2    
88.4    
88.7    
88.9    
89.2    
89.4    
89.7    
89.9    
90.2    
90.4    
90.7    
90.9    
91.2    
91.4    
91.7    
91.9    
92.2    
92.4    
92.7    
92.9    
93.2    
93.5    
93.7    
94.0    
94.2    
94.5    
94.7    
95.0    
95.2    
95.5    
95.7    
96.0    
96.2    
96.5    
96.7    
97.0    
97.2    
97.5    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 18 predictions from path traversal
Error with prediction: snap lend_intergenic: 6775, rend_intergenic: 2530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32035, rend_intergenic: 18218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41995, rend_intergenic: 32209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44700, rend_intergenic: 42106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61223, rend_intergenic: 47951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105625, rend_intergenic: 65160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108030, rend_intergenic: 106944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112134, rend_intergenic: 109210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125342, rend_intergenic: 116089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126451, rend_intergenic: 125593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137752, rend_intergenic: 126554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147571, rend_intergenic: 145236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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