-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_9918149-10039915

-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_22-snap.2051-T1
Valid prediction for Augustus_model.g33413.t1
Valid prediction for Augustus_model.g33414.t1
Valid prediction for snap_scaffold_22-snap.2038-T1
Valid prediction for snap_scaffold_22-snap.2055-T1
Valid prediction for GlimmerHMM_glimmerT_50095-T1
Valid prediction for Augustus_model.g33417.t1
Valid prediction for pasa_asmbl_30333.p1
Couldn't classify 117345, 117486
Sorry, prediction CodingQuarry_transcript_34266-T1 fails validation.
(ATG)	 CC	115582-115717	GT	AGG
(GTG)	 AG	116660-116882	GT	GGG
(GGA)	 CA	117345-117486	AA	AGA
-recovered CodingQuarry_transcript_34266-T1, initial, 115582, 115717
-recovered CodingQuarry_transcript_34266-T1, internal, 116660, 116882
Valid prediction for Augustus_model.g33418.t1
Valid prediction for snap_scaffold_22-snap.2050-T1
Couldn't classify 24331, 24801
Sorry, prediction pasa_asmbl_30329.p1 fails validation.
(AGA)	 TT	24331-24801	CT	AGC
Valid prediction for snap_scaffold_22-snap.2044-T1
Valid prediction for snap_scaffold_22-snap.2058-T1
Valid prediction for Augustus_model.g33426.t1
Valid prediction for Augustus_model.g33419.t1
Valid prediction for GlimmerHMM_glimmerT_50092-T1
Valid prediction for snap_scaffold_22-snap.2039-T1
Valid prediction for Augustus_model.g33424.t1
Couldn't classify 99230, 99316
Sorry, prediction pasa_asmbl_30339.p1 fails validation.
(ATG)	 AC	96105-96191	GT	GGG
(GAA)	 AG	97854-97982	GT	AGG
(GAG)	 AG	99230-99316	CT	CCC
-recovered pasa_asmbl_30339.p1, initial, 96105, 96191
-recovered pasa_asmbl_30339.p1, internal, 97854, 97982
Valid prediction for GlimmerHMM_glimmerT_50088-T1
Valid prediction for Augustus_model.g33421.t1
Valid prediction for GlimmerHMM_glimmerT_50083-T1
Valid prediction for snap_scaffold_22-snap.2056-T1
Valid prediction for snap_scaffold_22-snap.2048-T1
Valid prediction for GlimmerHMM_glimmerT_50087-T1
Valid prediction for GlimmerHMM_glimmerT_50086-T1
Valid prediction for GlimmerHMM_glimmerT_50089-T1
Valid prediction for GlimmerHMM_glimmerT_50081-T1
Couldn't classify 7015, 7165
Sorry, prediction pasa_asmbl_30327.p1 fails validation.
(CTG)	 GT	7015-7165	GT	AGG
(AGA)	 AG	7306-7517	GA	GAG
-recovered pasa_asmbl_30327.p1, terminal, 7306, 7517
Valid prediction for GlimmerHMM_glimmerT_50090-T1
Valid prediction for Augustus_model.g33415.t1
Valid prediction for GlimmerHMM_glimmerT_50082-T1
Valid prediction for Augustus_model.g33420.t1
Valid prediction for GlimmerHMM_glimmerT_50093-T1
Valid prediction for Augustus_model.g33423.t1
Valid prediction for snap_scaffold_22-snap.2033-T1
Valid prediction for snap_scaffold_22-snap.2031-T1
Valid prediction for snap_scaffold_22-snap.2041-T1
Valid prediction for snap_scaffold_22-snap.2052-T1
Valid prediction for GlimmerHMM_glimmerT_50096-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_22-snap.2042-T1
Valid prediction for snap_scaffold_22-snap.2045-T1
Valid prediction for snap_scaffold_22-snap.2057-T1
Valid prediction for snap_scaffold_22-snap.2040-T1
Valid prediction for snap_scaffold_22-snap.2053-T1
Valid prediction for snap_scaffold_22-snap.2049-T1
Valid prediction for Augustus_model.g33422.t1
Valid prediction for snap_scaffold_22-snap.2046-T1
Valid prediction for snap_scaffold_22-snap.2034-T1
Valid prediction for GlimmerHMM_glimmerT_50085-T1
Couldn't classify 28835, 28997
Sorry, prediction pasa_asmbl_29574.p1 fails validation.
(ATG)	 AG	27101-27165	GT	TTG
(AGG)	 AG	27577-27687	GT	GGG
(GTT)	 AG	28835-28997	GG	AGG
-recovered pasa_asmbl_29574.p1, initial, 27101, 27165
-recovered pasa_asmbl_29574.p1, internal, 27101, 27165
-recovered pasa_asmbl_29574.p1, internal, 27577, 27687
Valid prediction for GlimmerHMM_glimmerT_50084-T1
Valid prediction for GlimmerHMM_glimmerT_50091-T1
Valid prediction for snap_scaffold_22-snap.2032-T1
Valid prediction for snap_scaffold_22-snap.2036-T1
Valid prediction for snap_scaffold_22-snap.2037-T1
Valid prediction for GlimmerHMM_glimmerT_50094-T1
Valid prediction for snap_scaffold_22-snap.2043-T1
Valid prediction for GlimmerHMM_glimmerT_50097-T1
Valid prediction for Augustus_model.g33416.t1
Valid prediction for Augustus_model.g33425.t1
Valid prediction for snap_scaffold_22-snap.2035-T1
Valid prediction for snap_scaffold_22-snap.2054-T1
Valid prediction for snap_scaffold_22-snap.2047-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7517, rend_intergenic: 2879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24813, rend_intergenic: 10316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48893, rend_intergenic: 37927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58234, rend_intergenic: 50827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62353, rend_intergenic: 59814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66534, rend_intergenic: 62930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77892, rend_intergenic: 69385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79262, rend_intergenic: 78079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80175, rend_intergenic: 79283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93576, rend_intergenic: 89000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100342, rend_intergenic: 97763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118693, rend_intergenic: 109195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 121767
-exon list size: 217


building trellis

0.5    
0.9    
1.4    
1.8    
2.3    
2.7    
3.2    
3.7    
4.1    
4.6    
5.0    
5.5    
5.9    
6.4    
6.8    
7.3    
7.8    
8.2    
8.7    
9.1    
9.6    
10.0    
10.5    
11.0    
11.4    
11.9    
12.3    
12.8    
13.2    
13.7    
14.2    
14.6    
15.1    
15.5    
16.0    
16.4    
16.9    
17.4    
17.8    
18.3    
18.7    
19.2    
19.6    
20.1    
20.5    
21.0    
21.5    
21.9    
22.4    
22.8    
23.3    
23.7    
24.2    
24.7    
25.1    
25.6    
26.0    
26.5    
26.9    
27.4    
27.9    
28.3    
28.8    
29.2    
29.7    
30.1    
30.6    
31.1    
31.5    
32.0    
32.4    
32.9    
33.3    
33.8    
34.2    
34.7    
35.2    
35.6    
36.1    
36.5    
37.0    
37.4    
37.9    
38.4    
38.8    
39.3    
39.7    
40.2    
40.6    
41.1    
41.6    
42.0    
42.5    
42.9    
43.4    
43.8    
44.3    
44.7    
45.2    
45.7    
46.1    
46.6    
47.0    
47.5    
47.9    
48.4    
48.9    
49.3    
49.8    
50.2    
50.7    
51.1    
51.6    
52.1    
52.5    
53.0    
53.4    
53.9    
54.3    
54.8    
55.3    
55.7    
56.2    
56.6    
57.1    
57.5    
58.0    
58.4    
58.9    
59.4    
59.8    
60.3    
60.7    
61.2    
61.6    
62.1    
62.6    
63.0    
63.5    
63.9    
64.4    
64.8    
65.3    
65.8    
66.2    
66.7    
67.1    
67.6    
68.0    
68.5    
68.9    
69.4    
69.9    
70.3    
70.8    
71.2    
71.7    
72.1    
72.6    
73.1    
73.5    
74.0    
74.4    
74.9    
75.3    
75.8    
76.3    
76.7    
77.2    
77.6    
78.1    
78.5    
79.0    
79.5    
79.9    
80.4    
80.8    
81.3    
81.7    
82.2    
82.6    
83.1    
83.6    
84.0    
84.5    
84.9    
85.4    
85.8    
86.3    
86.8    
87.2    
87.7    
88.1    
88.6    
89.0    
89.5    
90.0    
90.4    
90.9    
91.3    
91.8    
92.2    
92.7    
93.2    
93.6    
94.1    
94.5    
95.0    
95.4    
95.9    
96.3    
96.8    
97.3    
97.7    
98.2    
98.6    
99.1    
99.5    
-found 18 predictions from path traversal
Error with prediction: snap lend_intergenic: 7517, rend_intergenic: 2879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24813, rend_intergenic: 10316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48893, rend_intergenic: 37927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58234, rend_intergenic: 50827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62353, rend_intergenic: 59814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66534, rend_intergenic: 62930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77892, rend_intergenic: 69385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79262, rend_intergenic: 78079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80175, rend_intergenic: 79283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93576, rend_intergenic: 89000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100342, rend_intergenic: 97763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118693, rend_intergenic: 109195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support