-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_2488478-2682296

-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_14-snap.454-T1
Valid prediction for snap_scaffold_14-snap.464-T1
Valid prediction for GlimmerHMM_glimmerT_33405-T1
Valid prediction for snap_scaffold_14-snap.433-T1
Valid prediction for GlimmerHMM_glimmerT_33404-T1
Couldn't classify 72290, 72882
Couldn't classify 72962, 73022
Sorry, prediction CodingQuarry_transcript_15592-T1 fails validation.
(ATG)	 CC	72290-72882	AG	AGA
(AGC)	 TC	72962-73022	TG	AAT
Valid prediction for GlimmerHMM_glimmerT_33401-T1
Valid prediction for snap_scaffold_14-snap.431-T1
Valid prediction for GlimmerHMM_glimmerT_33407-T1
Valid prediction for Augustus_model.g22352.t1
Valid prediction for HiQ_model.g22353.t1
Valid prediction for snap_scaffold_14-snap.435-T1
Valid prediction for snap_scaffold_14-snap.457-T1
Valid prediction for snap_scaffold_14-snap.461-T1
Valid prediction for GlimmerHMM_glimmerT_33421-T1
Valid prediction for snap_scaffold_14-snap.432-T1
Valid prediction for GlimmerHMM_glimmerT_33406-T1
Valid prediction for GlimmerHMM_glimmerT_33413-T1
Valid prediction for GlimmerHMM_glimmerT_33403-T1
Valid prediction for GlimmerHMM_glimmerT_33423-T1
Valid prediction for snap_scaffold_14-snap.453-T1
Valid prediction for pasa_asmbl_11879.p1
Valid prediction for Augustus_model.g22347.t1
Valid prediction for snap_scaffold_14-snap.449-T1
Valid prediction for snap_scaffold_14-snap.428-T1
Valid prediction for GlimmerHMM_glimmerT_33418-T1
Couldn't classify 72062, 73219
Sorry, prediction pasa_asmbl_11877.p1 fails validation.
(ATG)	 AA	72062-73219	TG	CAT
Valid prediction for Augustus_model.g22354.t1
Valid prediction for Augustus_model.g22348.t1
Valid prediction for GlimmerHMM_glimmerT_33409-T1
Valid prediction for snap_scaffold_14-snap.452-T1
Valid prediction for snap_scaffold_14-snap.447-T1
Valid prediction for snap_scaffold_14-snap.462-T1
Valid prediction for CodingQuarry_transcript_15593-T1
Valid prediction for snap_scaffold_14-snap.448-T1
Couldn't classify 170903, 171205
Sorry, prediction pasa_asmbl_12968.p1 fails validation.
(GCT)	 CA	170903-171205	TC	TCT
Valid prediction for snap_scaffold_14-snap.445-T1
Valid prediction for GlimmerHMM_glimmerT_33414-T1
Valid prediction for Augustus_model.g22349.t1
Valid prediction for GlimmerHMM_glimmerT_33417-T1
Valid prediction for snap_scaffold_14-snap.437-T1
Valid prediction for GlimmerHMM_glimmerT_33426-T1
Valid prediction for GlimmerHMM_glimmerT_33415-T1
Valid prediction for snap_scaffold_14-snap.434-T1
Valid prediction for Augustus_model.g22346.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_14-snap.455-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33411-T1
Valid prediction for snap_scaffold_14-snap.458-T1
Valid prediction for Augustus_model.g22351.t1
Valid prediction for GlimmerHMM_glimmerT_33420-T1
Valid prediction for GlimmerHMM_glimmerT_33402-T1
Valid prediction for snap_scaffold_14-snap.466-T1
Valid prediction for GlimmerHMM_glimmerT_33425-T1
Valid prediction for snap_scaffold_14-snap.430-T1
Valid prediction for snap_scaffold_14-snap.465-T1
Valid prediction for GlimmerHMM_glimmerT_33408-T1
Valid prediction for snap_scaffold_14-snap.429-T1
Valid prediction for GlimmerHMM_glimmerT_33419-T1
Valid prediction for snap_scaffold_14-snap.456-T1
Valid prediction for Augustus_model.g22350.t1
Valid prediction for snap_scaffold_14-snap.451-T1
Valid prediction for snap_scaffold_14-snap.443-T1
Valid prediction for snap_scaffold_14-snap.427-T1
Valid prediction for GlimmerHMM_glimmerT_33422-T1
Couldn't classify 78327, 78383
Sorry, prediction pasa_asmbl_12965.p1 fails validation.
(CAT)	 AG	78327-78383	GT	GTG
(TCG)	 AG	78757-78862	GT	AGG
(TCA)	 AG	79192-79352	GC	AGG
(TGT)	 AG	79476-79543	GT	AAG
(TAA)	 AG	79651-79719	GT	AAG
(CTC)	 AG	79880-80115	GT	AGG
(GCA)	 AG	80633-80796	GT	CAG
(ATA)	 AG	80917-81171	GT	ATG
(CTT)	 AG	81301-81408	CA	GAC
-recovered pasa_asmbl_12965.p1, terminal, 81301, 81408
-recovered pasa_asmbl_12965.p1, internal, 78327, 78383
-recovered pasa_asmbl_12965.p1, internal, 78757, 78862
-recovered pasa_asmbl_12965.p1, internal, 79192, 79352
-recovered pasa_asmbl_12965.p1, internal, 79476, 79543
-recovered pasa_asmbl_12965.p1, internal, 79651, 79719
-recovered pasa_asmbl_12965.p1, internal, 79880, 80115
-recovered pasa_asmbl_12965.p1, internal, 80633, 80796
-recovered pasa_asmbl_12965.p1, internal, 80917, 81171
Couldn't classify 76607, 76705
Couldn't classify 77344, 77412
Sorry, prediction pasa_asmbl_13800.p1 fails validation.
(TTT)	 CC	76607-76705	GT	AGG
(CCT)	 AG	76881-77063	GT	AGG
(CAA)	 AG	77344-77412	GG	ACG
-recovered pasa_asmbl_13800.p1, internal, 76881, 77063
Valid prediction for snap_scaffold_14-snap.463-T1
Valid prediction for snap_scaffold_14-snap.441-T1
Valid prediction for snap_scaffold_14-snap.460-T1
Valid prediction for GlimmerHMM_glimmerT_33424-T1
Valid prediction for snap_scaffold_14-snap.442-T1
Valid prediction for CodingQuarry_transcript_15594-T1
Valid prediction for GlimmerHMM_glimmerT_33410-T1
Couldn't classify 180240, 180439
Sorry, prediction pasa_asmbl_12963.p1 fails validation.
(CTG)	 CA	180240-180439	GT	ATG
(TCT)	 AG	180596-180763	GT	AGG
(GCT)	 AG	180857-181030	GT	AAG
(GTT)	 AG	181542-181706	GT	TGG
(TCT)	 AG	181894-181940	GT	ATG
(ATG)	 AG	182040-182569	TC	AGT
-recovered pasa_asmbl_12963.p1, terminal, 182040, 182569
-recovered pasa_asmbl_12963.p1, internal, 180596, 180763
-recovered pasa_asmbl_12963.p1, internal, 180857, 181030
-recovered pasa_asmbl_12963.p1, internal, 181542, 181706
-recovered pasa_asmbl_12963.p1, internal, 181894, 181940
Valid prediction for snap_scaffold_14-snap.459-T1
Valid prediction for GlimmerHMM_glimmerT_33412-T1
Valid prediction for snap_scaffold_14-snap.439-T1
Valid prediction for Augustus_model.g22357.t1
Valid prediction for snap_scaffold_14-snap.438-T1
Valid prediction for snap_scaffold_14-snap.436-T1
Valid prediction for Augustus_model.g22356.t1
Valid prediction for snap_scaffold_14-snap.440-T1
Valid prediction for GlimmerHMM_glimmerT_33416-T1
Valid prediction for Augustus_model.g22345.t1
Valid prediction for Augustus_model.g22355.t1
Valid prediction for snap_scaffold_14-snap.450-T1
Valid prediction for snap_scaffold_14-snap.446-T1
Valid prediction for snap_scaffold_14-snap.467-T1
Valid prediction for snap_scaffold_14-snap.444-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10509, rend_intergenic: 4544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11799, rend_intergenic: 11251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35546, rend_intergenic: 31405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36168, rend_intergenic: 35691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55742, rend_intergenic: 36661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67777, rend_intergenic: 61606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76362, rend_intergenic: 74954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150025, rend_intergenic: 149199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156148, rend_intergenic: 150150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168419, rend_intergenic: 165260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 193819
-exon list size: 332


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
29.0    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 10509, rend_intergenic: 4544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11799, rend_intergenic: 11251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35546, rend_intergenic: 31405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36168, rend_intergenic: 35691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55742, rend_intergenic: 36661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67777, rend_intergenic: 61606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76362, rend_intergenic: 74954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150025, rend_intergenic: 149199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156148, rend_intergenic: 150150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168419, rend_intergenic: 165260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support