-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_10003859-10206753

-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 GlimmerHMM_glimmerT_36788-T1
Valid prediction for GlimmerHMM_glimmerT_36809-T1
Valid prediction for GlimmerHMM_glimmerT_36798-T1
Valid prediction for snap_scaffold_15-snap.2094-T1
Couldn't classify 176595, 176624
Sorry, prediction pasa_asmbl_15446.p1 fails validation.
(CGG)	 AC	176595-176624	GT	TGG
(ACT)	 AG	176836-176926	GT	GGG
(GCA)	 AG	177073-177160	GT	AGG
(TGG)	 AG	177319-177922	GA	AGG
-recovered pasa_asmbl_15446.p1, terminal, 177319, 177922
-recovered pasa_asmbl_15446.p1, internal, 176836, 176926
-recovered pasa_asmbl_15446.p1, internal, 177073, 177160
Valid prediction for GlimmerHMM_glimmerT_36787-T1
Valid prediction for snap_scaffold_15-snap.2084-T1
Valid prediction for snap_scaffold_15-snap.2069-T1
Valid prediction for GlimmerHMM_glimmerT_36807-T1
Valid prediction for snap_scaffold_15-snap.2091-T1
Couldn't classify 131750, 131880
Couldn't classify 135132, 135263
Sorry, prediction pasa_asmbl_15441.p1 fails validation.
(AAC)	 AC	131750-131880	GT	AGG
(GAC)	 AG	132226-132313	GT	AGG
(GAC)	 AG	133213-133254	GT	TTG
(TCG)	 AG	134259-134378	GT	TGG
(GGG)	 AG	134558-134617	GT	ACG
(TCT)	 AG	134736-134804	GT	TGG
(ATG)	 AG	135132-135263	AG	GGA
-recovered pasa_asmbl_15441.p1, internal, 132226, 132313
-recovered pasa_asmbl_15441.p1, internal, 133213, 133254
-recovered pasa_asmbl_15441.p1, internal, 134259, 134378
-recovered pasa_asmbl_15441.p1, internal, 134558, 134617
-recovered pasa_asmbl_15441.p1, internal, 134736, 134804
Valid prediction for GlimmerHMM_glimmerT_36804-T1
Valid prediction for Augustus_model.g24506.t1
Valid prediction for GlimmerHMM_glimmerT_36808-T1
Valid prediction for snap_scaffold_15-snap.2075-T1
Valid prediction for snap_scaffold_15-snap.2086-T1
Valid prediction for GlimmerHMM_glimmerT_36789-T1
Valid prediction for GlimmerHMM_glimmerT_36796-T1
Valid prediction for snap_scaffold_15-snap.2083-T1
Valid prediction for Augustus_model.g24511.t1
Valid prediction for CodingQuarry_transcript_18119-T1
Couldn't classify 174966, 175034
Couldn't classify 175666, 175715
Sorry, prediction pasa_asmbl_15931.p1 fails validation.
(GAT)	 AG	174966-175034	GT	AGG
(ATG)	 AG	175201-175326	GT	AGG
(AAG)	 AG	175415-175523	GT	AGG
(CAA)	 AG	175666-175715	AA	CCA
-recovered pasa_asmbl_15931.p1, initial, 175201, 175326
-recovered pasa_asmbl_15931.p1, internal, 174966, 175034
-recovered pasa_asmbl_15931.p1, internal, 175201, 175326
-recovered pasa_asmbl_15931.p1, internal, 175415, 175523
Valid prediction for Augustus_model.g24513.t1
Valid prediction for Augustus_model.g24503.t1
Valid prediction for snap_scaffold_15-snap.2079-T1
Valid prediction for HiQ_model.g24507.t1
Valid prediction for snap_scaffold_15-snap.2089-T1
Valid prediction for snap_scaffold_15-snap.2076-T1
Valid prediction for GlimmerHMM_glimmerT_36794-T1
Valid prediction for Augustus_model.g24512.t1
Valid prediction for GlimmerHMM_glimmerT_36803-T1
Valid prediction for Augustus_model.g24502.t1
Valid prediction for Augustus_model.g24515.t1
Valid prediction for snap_scaffold_15-snap.2058-T1
Couldn't classify 1718, 1864
Couldn't classify 5172, 5234
Sorry, prediction pasa_asmbl_15438.p1 fails validation.
(CCC)	 AC	1718-1864	GT	AGG
(CTG)	 AG	4123-4338	GT	AGG
(GTT)	 AG	5172-5234	GC	ACG
-recovered pasa_asmbl_15438.p1, internal, 4123, 4338
-recovered pasa_asmbl_15438.p1, internal, 5172, 5234
Valid prediction for Augustus_model.g24504.t1
Valid prediction for snap_scaffold_15-snap.2092-T1
Valid prediction for snap_scaffold_15-snap.2064-T1
Valid prediction for GlimmerHMM_glimmerT_36805-T1
Valid prediction for snap_scaffold_15-snap.2090-T1
Valid prediction for Augustus_model.g24517.t1
Valid prediction for snap_scaffold_15-snap.2073-T1
Valid prediction for GlimmerHMM_glimmerT_36806-T1
Valid prediction for pasa_asmbl_15440.p1
Valid prediction for Augustus_model.g24516.t1
Valid prediction for GlimmerHMM_glimmerT_36791-T1
Valid prediction for snap_scaffold_15-snap.2067-T1
Couldn't classify 136748, 136787
Couldn't classify 137542, 137816
Sorry, prediction pasa_asmbl_15442.p1 fails validation.
(CCG)	 TC	136748-136787	GT	GGG
(GTA)	 AG	136958-137044	GT	GGG
(GAG)	 AG	137542-137816	TC	CCT
-recovered pasa_asmbl_15442.p1, internal, 136958, 137044
Valid prediction for Augustus_model.g24501.t1
Valid prediction for snap_scaffold_15-snap.2085-T1
Valid prediction for snap_scaffold_15-snap.2066-T1
Valid prediction for Augustus_model.g24518.t1
Valid prediction for snap_scaffold_15-snap.2088-T1
Valid prediction for Augustus_model.g24510.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_15-snap.2081-T1
Valid prediction for snap_scaffold_15-snap.2074-T1
Valid prediction for GlimmerHMM_glimmerT_36797-T1
Valid prediction for Augustus_model.g24505.t1
Valid prediction for GlimmerHMM_glimmerT_36802-T1
Valid prediction for snap_scaffold_15-snap.2059-T1
Valid prediction for GlimmerHMM_glimmerT_36795-T1
Valid prediction for snap_scaffold_15-snap.2087-T1
Valid prediction for GlimmerHMM_glimmerT_36810-T1
Valid prediction for snap_scaffold_15-snap.2070-T1
Valid prediction for snap_scaffold_15-snap.2093-T1
Valid prediction for GlimmerHMM_glimmerT_36790-T1
Valid prediction for GlimmerHMM_glimmerT_36801-T1
Valid prediction for snap_scaffold_15-snap.2078-T1
Valid prediction for Augustus_model.g24509.t1
Valid prediction for snap_scaffold_15-snap.2071-T1
Couldn't classify 106155, 106177
Sorry, prediction pasa_asmbl_14422.p1 fails validation.
(ATG)	 CC	102612-102760	GT	AGG
(CCC)	 AG	103032-103155	GT	TGG
(AGG)	 AG	103458-103535	GT	AGG
(GAG)	 AG	104425-104701	GT	CAG
(AGG)	 AG	105644-105696	GT	TGG
(GAT)	 AG	105810-105882	GT	AGG
(GTA)	 AG	106155-106177	GA	GAG
-recovered pasa_asmbl_14422.p1, initial, 102612, 102760
-recovered pasa_asmbl_14422.p1, internal, 103032, 103155
-recovered pasa_asmbl_14422.p1, internal, 103458, 103535
-recovered pasa_asmbl_14422.p1, internal, 104425, 104701
-recovered pasa_asmbl_14422.p1, internal, 105644, 105696
-recovered pasa_asmbl_14422.p1, internal, 105810, 105882
Valid prediction for snap_scaffold_15-snap.2063-T1
Valid prediction for snap_scaffold_15-snap.2072-T1
Valid prediction for snap_scaffold_15-snap.2080-T1
Valid prediction for snap_scaffold_15-snap.2068-T1
Valid prediction for GlimmerHMM_glimmerT_36793-T1
Couldn't classify 107094, 107259
Sorry, prediction pasa_asmbl_14421.p1 fails validation.
(AGC)	 GC	107094-107259	GT	AGG
(CCA)	 AG	107877-107962	GT	AGG
(GAC)	 AG	108079-108252	TG	AGT
-recovered pasa_asmbl_14421.p1, terminal, 108079, 108252
-recovered pasa_asmbl_14421.p1, internal, 107877, 107962
Valid prediction for snap_scaffold_15-snap.2065-T1
Valid prediction for Augustus_model.g24508.t1
Valid prediction for snap_scaffold_15-snap.2077-T1
Valid prediction for Augustus_model.g24514.t1
Valid prediction for GlimmerHMM_glimmerT_36800-T1
Valid prediction for snap_scaffold_15-snap.2060-T1
Valid prediction for snap_scaffold_15-snap.2061-T1
Valid prediction for GlimmerHMM_glimmerT_36799-T1
Valid prediction for snap_scaffold_15-snap.2062-T1
Valid prediction for snap_scaffold_15-snap.2082-T1
Valid prediction for GlimmerHMM_glimmerT_36792-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 31286, rend_intergenic: 2525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37452, rend_intergenic: 36332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49288, rend_intergenic: 37466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66844, rend_intergenic: 52896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79683, rend_intergenic: 70507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86929, rend_intergenic: 80151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105780, rend_intergenic: 103993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159086, rend_intergenic: 157734  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198102, rend_intergenic: 195384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 202895
-exon list size: 347


building trellis

0.3    
0.6    
0.9    
1.1    
1.4    
1.7    
2.0    
2.3    
2.6    
2.9    
3.2    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.4    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.6    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.8    
97.1    
97.4    
97.7    
98.0    
98.3    
98.6    
98.9    
99.1    
99.4    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 31286, rend_intergenic: 2525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37452, rend_intergenic: 36332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49288, rend_intergenic: 37466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66844, rend_intergenic: 52896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79683, rend_intergenic: 70507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86929, rend_intergenic: 80151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105780, rend_intergenic: 103993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159086, rend_intergenic: 157734  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198102, rend_intergenic: 195384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support