-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_7491643-7637823

-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 Augustus_model.g22835.t1
Valid prediction for GlimmerHMM_glimmerT_34187-T1
Valid prediction for snap_scaffold_14-snap.1556-T1
Valid prediction for GlimmerHMM_glimmerT_34185-T1
Valid prediction for snap_scaffold_14-snap.1559-T1
Valid prediction for GlimmerHMM_glimmerT_34176-T1
Valid prediction for snap_scaffold_14-snap.1574-T1
Valid prediction for snap_scaffold_14-snap.1555-T1
Valid prediction for pasa_asmbl_12173.p1
Valid prediction for GlimmerHMM_glimmerT_34189-T1
Valid prediction for Augustus_model.g22846.t1
Valid prediction for snap_scaffold_14-snap.1546-T1
Valid prediction for GlimmerHMM_glimmerT_34175-T1
Valid prediction for Augustus_model.g22845.t1
Valid prediction for snap_scaffold_14-snap.1563-T1
Sorry, intron length (5) is less than minimum required (10)
Couldn't classify 88977, 89161
Sorry, prediction pasa_asmbl_12699.p1 fails validation.
(ATG)	 TC	88236-88466	GT	AGG
(GCG)	 AG	88664-88844	GT	AGG
(GCC)	 AG	88977-89161	GA	GGG
-recovered pasa_asmbl_12699.p1, initial, 88236, 88466
-recovered pasa_asmbl_12699.p1, internal, 88664, 88844
Valid prediction for HiQ_model.g22838.t1
Valid prediction for GlimmerHMM_glimmerT_34192-T1
Valid prediction for snap_scaffold_14-snap.1564-T1
Couldn't classify 7165, 7324
Sorry, prediction pasa_asmbl_12171.p1 fails validation.
(TGT)	 TG	7165-7324	GT	AGG
(AGC)	 AG	7458-7528	GT	AGG
(GTG)	 AG	7627-7719	GT	AGG
(GAG)	 AG	7836-7928	GT	AGG
(CAG)	 AG	8200-8373	GT	AGG
(GAG)	 AG	8657-8804	GT	AGG
(GTT)	 AG	8941-9134	AC	AAA
-recovered pasa_asmbl_12171.p1, terminal, 8941, 9134
-recovered pasa_asmbl_12171.p1, internal, 7458, 7528
-recovered pasa_asmbl_12171.p1, internal, 7627, 7719
-recovered pasa_asmbl_12171.p1, internal, 7836, 7928
-recovered pasa_asmbl_12171.p1, internal, 8200, 8373
-recovered pasa_asmbl_12171.p1, internal, 8657, 8804
Valid prediction for snap_scaffold_14-snap.1568-T1
Valid prediction for GlimmerHMM_glimmerT_34180-T1
Valid prediction for GlimmerHMM_glimmerT_34193-T1
Valid prediction for snap_scaffold_14-snap.1570-T1
Valid prediction for snap_scaffold_14-snap.1561-T1
Valid prediction for GlimmerHMM_glimmerT_34195-T1
Valid prediction for snap_scaffold_14-snap.1557-T1
Valid prediction for Augustus_model.g22847.t1
Valid prediction for snap_scaffold_14-snap.1541-T1
Valid prediction for snap_scaffold_14-snap.1560-T1
Valid prediction for snap_scaffold_14-snap.1549-T1
Valid prediction for HiQ_model.g22834.t1
Valid prediction for GlimmerHMM_glimmerT_34182-T1
Valid prediction for CodingQuarry_transcript_15715-T1
Valid prediction for snap_scaffold_14-snap.1547-T1
Valid prediction for snap_scaffold_14-snap.1572-T1
Valid prediction for snap_scaffold_14-snap.1553-T1
Valid prediction for Augustus_model.g22843.t1
Valid prediction for CodingQuarry_transcript_15714-T1
Valid prediction for GlimmerHMM_glimmerT_34190-T1
Valid prediction for snap_scaffold_14-snap.1552-T1
Valid prediction for snap_scaffold_14-snap.1567-T1
Valid prediction for snap_scaffold_14-snap.1542-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_34183-T1
Valid prediction for Augustus_model.g22837.t1
Valid prediction for GlimmerHMM_glimmerT_34186-T1
Valid prediction for pasa_asmbl_13222.p1
Valid prediction for snap_scaffold_14-snap.1554-T1
Valid prediction for snap_scaffold_14-snap.1545-T1
Valid prediction for Augustus_model.g22841.t1
Valid prediction for GlimmerHMM_glimmerT_34179-T1
Valid prediction for GlimmerHMM_glimmerT_34181-T1
Valid prediction for CodingQuarry_transcript_15719-T1
Valid prediction for Augustus_model.g22842.t1
Valid prediction for CodingQuarry_transcript_15718-T1
Valid prediction for GlimmerHMM_glimmerT_34177-T1
Valid prediction for CodingQuarry_transcript_15717-T1
Valid prediction for snap_scaffold_14-snap.1565-T1
Valid prediction for CodingQuarry_transcript_15716-T1
Valid prediction for pasa_asmbl_13215.p1
Valid prediction for snap_scaffold_14-snap.1544-T1
Valid prediction for Augustus_model.g22839.t1
Valid prediction for snap_scaffold_14-snap.1571-T1
Valid prediction for snap_scaffold_14-snap.1548-T1
Couldn't classify 68564, 68636
Couldn't classify 69780, 69848
Sorry, prediction pasa_asmbl_13227.p1 fails validation.
(CCC)	 CC	68564-68636	GT	AGG
(GTG)	 AG	68936-69036	GT	AGG
(TGT)	 AG	69398-69655	GT	AGG
(AGT)	 AG	69780-69848	GC	GGG
-recovered pasa_asmbl_13227.p1, internal, 68936, 69036
-recovered pasa_asmbl_13227.p1, internal, 69398, 69655
-recovered pasa_asmbl_13227.p1, internal, 69780, 69848
Valid prediction for GlimmerHMM_glimmerT_34178-T1
Valid prediction for Augustus_model.g22836.t1
Valid prediction for snap_scaffold_14-snap.1540-T1
Valid prediction for snap_scaffold_14-snap.1551-T1
Valid prediction for GlimmerHMM_glimmerT_34194-T1
Couldn't classify 70629, 70757
Sorry, prediction pasa_asmbl_13225.p1 fails validation.
(CCA)	 AG	70629-70757	GT	AGG
(GAA)	 AG	71128-71277	GT	AGG
(CTC)	 AG	71535-71745	GT	AGG
(GTG)	 AG	73086-73282	AT	AAA
-recovered pasa_asmbl_13225.p1, terminal, 73086, 73282
-recovered pasa_asmbl_13225.p1, internal, 70629, 70757
-recovered pasa_asmbl_13225.p1, internal, 71128, 71277
-recovered pasa_asmbl_13225.p1, internal, 71535, 71745
Valid prediction for GlimmerHMM_glimmerT_34196-T1
Valid prediction for Augustus_model.g22844.t1
Valid prediction for GlimmerHMM_glimmerT_34184-T1
Valid prediction for GlimmerHMM_glimmerT_34191-T1
Valid prediction for GlimmerHMM_glimmerT_34188-T1
Valid prediction for snap_scaffold_14-snap.1543-T1
Valid prediction for snap_scaffold_14-snap.1550-T1
Valid prediction for snap_scaffold_14-snap.1573-T1
Couldn't classify 50424, 50535
Sorry, prediction pasa_asmbl_13228.p1 fails validation.
(GGT)	 CA	50424-50535	GT	AGG
(TGG)	 AG	51209-51357	GT	TGG
(ATC)	 AG	51475-51703	GT	CGG
(AGC)	 AG	51830-52000	GT	CTG
(CTG)	 AG	52119-52267	GT	TTG
(GGA)	 AG	52432-52600	GT	AGG
(CCA)	 AG	52813-52952	GT	AGG
(ATG)	 AG	54156-54197	GA	GAG
-recovered pasa_asmbl_13228.p1, terminal, 54156, 54197
-recovered pasa_asmbl_13228.p1, internal, 51209, 51357
-recovered pasa_asmbl_13228.p1, internal, 51475, 51703
-recovered pasa_asmbl_13228.p1, internal, 51830, 52000
-recovered pasa_asmbl_13228.p1, internal, 52119, 52267
-recovered pasa_asmbl_13228.p1, internal, 52432, 52600
-recovered pasa_asmbl_13228.p1, internal, 52813, 52952
Valid prediction for snap_scaffold_14-snap.1562-T1
Valid prediction for snap_scaffold_14-snap.1566-T1
Couldn't classify 93654, 93743
Sorry, prediction pasa_asmbl_13811.p1 fails validation.
(GCC)	 GG	93654-93743	GT	AGG
(TTG)	 AG	93884-94135	GT	AGG
(GTG)	 AG	94246-94383	GG	AGG
-recovered pasa_asmbl_13811.p1, terminal, 94246, 94383
-recovered pasa_asmbl_13811.p1, internal, 93884, 94135
Valid prediction for snap_scaffold_14-snap.1558-T1
Valid prediction for Augustus_model.g22840.t1
Valid prediction for snap_scaffold_14-snap.1569-T1
Couldn't classify 92159, 92528
Couldn't classify 92668, 92843
Sorry, prediction pasa_asmbl_13224.p1 fails validation.
(CTC)	 AC	92159-92528	GT	GGG
(GCG)	 AG	92668-92843	GC	CAG
-recovered pasa_asmbl_13224.p1, internal, 92668, 92843

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9553, rend_intergenic: 4520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12928, rend_intergenic: 10506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24652, rend_intergenic: 19335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33760, rend_intergenic: 30259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48170, rend_intergenic: 40448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70130, rend_intergenic: 55139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83197, rend_intergenic: 73650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98277, rend_intergenic: 91687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110626, rend_intergenic: 101921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119560, rend_intergenic: 116783  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120321, rend_intergenic: 119973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130439, rend_intergenic: 120559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141887, rend_intergenic: 139096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 146181
-exon list size: 386


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.1    
2.3    
2.6    
2.8    
3.1    
3.4    
3.6    
3.9    
4.1    
4.4    
4.6    
4.9    
5.2    
5.4    
5.7    
5.9    
6.2    
6.4    
6.7    
7.0    
7.2    
7.5    
7.7    
8.0    
8.2    
8.5    
8.8    
9.0    
9.3    
9.5    
9.8    
10.1    
10.3    
10.6    
10.8    
11.1    
11.3    
11.6    
11.9    
12.1    
12.4    
12.6    
12.9    
13.1    
13.4    
13.7    
13.9    
14.2    
14.4    
14.7    
14.9    
15.2    
15.5    
15.7    
16.0    
16.2    
16.5    
16.8    
17.0    
17.3    
17.5    
17.8    
18.0    
18.3    
18.6    
18.8    
19.1    
19.3    
19.6    
19.8    
20.1    
20.4    
20.6    
20.9    
21.1    
21.4    
21.6    
21.9    
22.2    
22.4    
22.7    
22.9    
23.2    
23.5    
23.7    
24.0    
24.2    
24.5    
24.7    
25.0    
25.3    
25.5    
25.8    
26.0    
26.3    
26.5    
26.8    
27.1    
27.3    
27.6    
27.8    
28.1    
28.4    
28.6    
28.9    
29.1    
29.4    
29.6    
29.9    
30.2    
30.4    
30.7    
30.9    
31.2    
31.4    
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    
35.1    
35.3    
35.6    
35.8    
36.1    
36.3    
36.6    
36.9    
37.1    
37.4    
37.6    
37.9    
38.1    
38.4    
38.7    
38.9    
39.2    
39.4    
39.7    
39.9    
40.2    
40.5    
40.7    
41.0    
41.2    
41.5    
41.8    
42.0    
42.3    
42.5    
42.8    
43.0    
43.3    
43.6    
43.8    
44.1    
44.3    
44.6    
44.8    
45.1    
45.4    
45.6    
45.9    
46.1    
46.4    
46.6    
46.9    
47.2    
47.4    
47.7    
47.9    
48.2    
48.5    
48.7    
49.0    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.0    
51.3    
51.5    
51.8    
52.1    
52.3    
52.6    
52.8    
53.1    
53.4    
53.6    
53.9    
54.1    
54.4    
54.6    
54.9    
55.2    
55.4    
55.7    
55.9    
56.2    
56.4    
56.7    
57.0    
57.2    
57.5    
57.7    
58.0    
58.2    
58.5    
58.8    
59.0    
59.3    
59.5    
59.8    
60.1    
60.3    
60.6    
60.8    
61.1    
61.3    
61.6    
61.9    
62.1    
62.4    
62.6    
62.9    
63.1    
63.4    
63.7    
63.9    
64.2    
64.4    
64.7    
64.9    
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    
68.6    
68.8    
69.1    
69.3    
69.6    
69.8    
70.1    
70.4    
70.6    
70.9    
71.1    
71.4    
71.6    
71.9    
72.2    
72.4    
72.7    
72.9    
73.2    
73.5    
73.7    
74.0    
74.2    
74.5    
74.7    
75.0    
75.3    
75.5    
75.8    
76.0    
76.3    
76.5    
76.8    
77.1    
77.3    
77.6    
77.8    
78.1    
78.4    
78.6    
78.9    
79.1    
79.4    
79.6    
79.9    
80.2    
80.4    
80.7    
80.9    
81.2    
81.4    
81.7    
82.0    
82.2    
82.5    
82.7    
83.0    
83.2    
83.5    
83.8    
84.0    
84.3    
84.5    
84.8    
85.1    
85.3    
85.6    
85.8    
86.1    
86.3    
86.6    
86.9    
87.1    
87.4    
87.6    
87.9    
88.1    
88.4    
88.7    
88.9    
89.2    
89.4    
89.7    
89.9    
90.2    
90.5    
90.7    
91.0    
91.2    
91.5    
91.8    
92.0    
92.3    
92.5    
92.8    
93.0    
93.3    
93.6    
93.8    
94.1    
94.3    
94.6    
94.8    
95.1    
95.4    
95.6    
95.9    
96.1    
96.4    
96.6    
96.9    
97.2    
97.4    
97.7    
97.9    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 9553, rend_intergenic: 4520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12928, rend_intergenic: 10506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24652, rend_intergenic: 19335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33760, rend_intergenic: 30259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48170, rend_intergenic: 40448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70130, rend_intergenic: 55139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83197, rend_intergenic: 73650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98277, rend_intergenic: 91687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110626, rend_intergenic: 101921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119560, rend_intergenic: 116783  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120321, rend_intergenic: 119973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130439, rend_intergenic: 120559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141887, rend_intergenic: 139096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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

-building DP trellis

-building trellis in range 131267 - 146181
-exon list size: 11


building trellis

7.7    
15.4    
23.1    
30.8    
38.5    
46.2    
53.8    
61.5    
69.2    
76.9    
84.6    
92.3    
-found 1 predictions from path traversal

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

-building DP trellis

-building trellis in range 132800 - 146181
-exon list size: 10


building trellis

8.3    
16.7    
25.0    
33.3    
41.7    
50.0    
58.3    
66.7    
75.0    
83.3    
91.7    
-found 1 predictions from path traversal

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