-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_7061610-7291301

-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_16-snap.1327-T1
Valid prediction for snap_scaffold_16-snap.1295-T1
Valid prediction for snap_scaffold_16-snap.1310-T1
Valid prediction for pasa_asmbl_16325.p1
Valid prediction for GlimmerHMM_glimmerT_38512-T1
Valid prediction for snap_scaffold_16-snap.1299-T1
Valid prediction for snap_scaffold_16-snap.1302-T1
Valid prediction for snap_scaffold_16-snap.1289-T1
Valid prediction for GlimmerHMM_glimmerT_38510-T1
Valid prediction for GlimmerHMM_glimmerT_38531-T1
Valid prediction for GlimmerHMM_glimmerT_38520-T1
Valid prediction for snap_scaffold_16-snap.1307-T1
Valid prediction for GlimmerHMM_glimmerT_38524-T1
Couldn't classify 131329, 131422
Sorry, prediction pasa_asmbl_16328.p1 fails validation.
(ATG)	 TG	130575-131068	GT	AGG
(AGA)	 AG	131329-131422	CC	CCC
-recovered pasa_asmbl_16328.p1, initial, 130575, 131068
Valid prediction for GlimmerHMM_glimmerT_38527-T1
Valid prediction for GlimmerHMM_glimmerT_38521-T1
Valid prediction for snap_scaffold_16-snap.1304-T1
Valid prediction for snap_scaffold_16-snap.1305-T1
Valid prediction for snap_scaffold_16-snap.1306-T1
Valid prediction for snap_scaffold_16-snap.1324-T1
Valid prediction for Augustus_model.g25716.t1
Valid prediction for snap_scaffold_16-snap.1322-T1
Valid prediction for snap_scaffold_16-snap.1321-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.1317-T1
Valid prediction for snap_scaffold_16-snap.1296-T1
Valid prediction for GlimmerHMM_glimmerT_38535-T1
Valid prediction for snap_scaffold_16-snap.1319-T1
Valid prediction for snap_scaffold_16-snap.1326-T1
Valid prediction for HiQ_model.g25719.t1
Valid prediction for GlimmerHMM_glimmerT_38528-T1
Valid prediction for snap_scaffold_16-snap.1323-T1
Valid prediction for Augustus_model.g25709.t1
Couldn't classify 8365, 8697
Sorry, prediction pasa_asmbl_16321.p1 fails validation.
(CAC)	 AC	8365-8697	CC	CCC
Valid prediction for snap_scaffold_16-snap.1301-T1
Couldn't classify 212915, 213033
Sorry, prediction pasa_asmbl_16331.p1 fails validation.
(AGT)	 AC	212915-213033	GT	AGG
(ACT)	 AG	213294-213398	GT	AAG
(CTC)	 AG	213515-213754	GT	AGG
(GAA)	 AG	214789-214992	GT	AAG
(ACC)	 AG	215111-215240	GT	AGG
(GAC)	 AG	215428-215510	GT	AGG
(CCC)	 AG	216084-216214	GT	AGG
(ATC)	 AG	216368-216492	GT	AGG
(AAC)	 AG	216766-217041	CA	GAC
add_exon() Sorry, pasa_asmbl_16331.p1 213294-213398-terminal-1 is invalid.
-recovered pasa_asmbl_16331.p1, terminal, 213294, 213398
-recovered pasa_asmbl_16331.p1, terminal, 216766, 217041
-recovered pasa_asmbl_16331.p1, internal, 213294, 213398
-recovered pasa_asmbl_16331.p1, internal, 213515, 213754
-recovered pasa_asmbl_16331.p1, internal, 214789, 214992
-recovered pasa_asmbl_16331.p1, internal, 215111, 215240
-recovered pasa_asmbl_16331.p1, internal, 215428, 215510
-recovered pasa_asmbl_16331.p1, internal, 216084, 216214
-recovered pasa_asmbl_16331.p1, internal, 216368, 216492
Valid prediction for Augustus_model.g25711.t1
Valid prediction for snap_scaffold_16-snap.1293-T1
Valid prediction for GlimmerHMM_glimmerT_38533-T1
Valid prediction for GlimmerHMM_glimmerT_38525-T1
Valid prediction for GlimmerHMM_glimmerT_38515-T1
Valid prediction for Augustus_model.g25710.t1
Valid prediction for Augustus_model.g25714.t1
Valid prediction for snap_scaffold_16-snap.1314-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 Augustus_model.g25718.t1
Valid prediction for GlimmerHMM_glimmerT_38511-T1
Valid prediction for GlimmerHMM_glimmerT_38532-T1
Valid prediction for snap_scaffold_16-snap.1308-T1
Valid prediction for GlimmerHMM_glimmerT_38536-T1
Valid prediction for GlimmerHMM_glimmerT_38516-T1
Valid prediction for snap_scaffold_16-snap.1313-T1
Couldn't classify 171596, 171979
Couldn't classify 174777, 175207
Sorry, prediction pasa_asmbl_17166.p1 fails validation.
(GAC)	 TG	171596-171979	GT	AGG
(GAG)	 AG	173410-173590	GT	AGG
(GGA)	 AG	174777-175207	AA	TGA
-recovered pasa_asmbl_17166.p1, internal, 173410, 173590
Valid prediction for snap_scaffold_16-snap.1298-T1
Valid prediction for snap_scaffold_16-snap.1311-T1
Valid prediction for snap_scaffold_16-snap.1297-T1
Valid prediction for GlimmerHMM_glimmerT_38534-T1
Valid prediction for GlimmerHMM_glimmerT_38517-T1
Valid prediction for HiQ_model.g25717.t1
Valid prediction for GlimmerHMM_glimmerT_38522-T1
Valid prediction for GlimmerHMM_glimmerT_38513-T1
Couldn't classify 175301, 175603
Sorry, prediction pasa_asmbl_17163.p1 fails validation.
(GGG)	 AG	175301-175603	GT	AGG
(GTA)	 AG	175739-176044	AC	GAA
-recovered pasa_asmbl_17163.p1, terminal, 175739, 176044
-recovered pasa_asmbl_17163.p1, internal, 175301, 175603
Valid prediction for GlimmerHMM_glimmerT_38526-T1
Valid prediction for snap_scaffold_16-snap.1312-T1
Valid prediction for snap_scaffold_16-snap.1315-T1
Valid prediction for snap_scaffold_16-snap.1300-T1
Valid prediction for GlimmerHMM_glimmerT_38519-T1
Valid prediction for GlimmerHMM_glimmerT_38530-T1
Valid prediction for snap_scaffold_16-snap.1325-T1
Valid prediction for pasa_asmbl_17173.p1
Valid prediction for Augustus_model.g25715.t1
Valid prediction for GlimmerHMM_glimmerT_38529-T1
Valid prediction for GlimmerHMM_glimmerT_38518-T1
Valid prediction for snap_scaffold_16-snap.1318-T1
Valid prediction for snap_scaffold_16-snap.1309-T1
Valid prediction for snap_scaffold_16-snap.1316-T1
Valid prediction for snap_scaffold_16-snap.1290-T1
Valid prediction for snap_scaffold_16-snap.1320-T1
Valid prediction for snap_scaffold_16-snap.1291-T1
Valid prediction for Augustus_model.g25713.t1
Valid prediction for snap_scaffold_16-snap.1303-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_38514-T1
Valid prediction for Augustus_model.g25712.t1
Valid prediction for snap_scaffold_16-snap.1292-T1
Valid prediction for snap_scaffold_16-snap.1294-T1
Valid prediction for GlimmerHMM_glimmerT_38523-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 23328, rend_intergenic: 10093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30187, rend_intergenic: 25224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39663, rend_intergenic: 35536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51401, rend_intergenic: 46486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68038, rend_intergenic: 63989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79095, rend_intergenic: 72907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85246, rend_intergenic: 79252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89704, rend_intergenic: 85363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121546, rend_intergenic: 119151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131953, rend_intergenic: 121687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149401, rend_intergenic: 146171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159582, rend_intergenic: 155668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173427, rend_intergenic: 169847  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174374, rend_intergenic: 173572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200787, rend_intergenic: 175330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 229692
-exon list size: 380


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.6    
1.8    
2.1    
2.4    
2.6    
2.9    
3.1    
3.4    
3.7    
3.9    
4.2    
4.5    
4.7    
5.0    
5.2    
5.5    
5.8    
6.0    
6.3    
6.5    
6.8    
7.1    
7.3    
7.6    
7.9    
8.1    
8.4    
8.6    
8.9    
9.2    
9.4    
9.7    
9.9    
10.2    
10.5    
10.7    
11.0    
11.3    
11.5    
11.8    
12.0    
12.3    
12.6    
12.8    
13.1    
13.4    
13.6    
13.9    
14.1    
14.4    
14.7    
14.9    
15.2    
15.4    
15.7    
16.0    
16.2    
16.5    
16.8    
17.0    
17.3    
17.5    
17.8    
18.1    
18.3    
18.6    
18.8    
19.1    
19.4    
19.6    
19.9    
20.2    
20.4    
20.7    
20.9    
21.2    
21.5    
21.7    
22.0    
22.3    
22.5    
22.8    
23.0    
23.3    
23.6    
23.8    
24.1    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.3    
28.5    
28.8    
29.1    
29.3    
29.6    
29.8    
30.1    
30.4    
30.6    
30.9    
31.2    
31.4    
31.7    
31.9    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.6    
34.8    
35.1    
35.3    
35.6    
35.9    
36.1    
36.4    
36.6    
36.9    
37.2    
37.4    
37.7    
38.0    
38.2    
38.5    
38.7    
39.0    
39.3    
39.5    
39.8    
40.1    
40.3    
40.6    
40.8    
41.1    
41.4    
41.6    
41.9    
42.1    
42.4    
42.7    
42.9    
43.2    
43.5    
43.7    
44.0    
44.2    
44.5    
44.8    
45.0    
45.3    
45.5    
45.8    
46.1    
46.3    
46.6    
46.9    
47.1    
47.4    
47.6    
47.9    
48.2    
48.4    
48.7    
49.0    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.0    
51.3    
51.6    
51.8    
52.1    
52.4    
52.6    
52.9    
53.1    
53.4    
53.7    
53.9    
54.2    
54.5    
54.7    
55.0    
55.2    
55.5    
55.8    
56.0    
56.3    
56.5    
56.8    
57.1    
57.3    
57.6    
57.9    
58.1    
58.4    
58.6    
58.9    
59.2    
59.4    
59.7    
59.9    
60.2    
60.5    
60.7    
61.0    
61.3    
61.5    
61.8    
62.0    
62.3    
62.6    
62.8    
63.1    
63.4    
63.6    
63.9    
64.1    
64.4    
64.7    
64.9    
65.2    
65.4    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.1    
68.3    
68.6    
68.8    
69.1    
69.4    
69.6    
69.9    
70.2    
70.4    
70.7    
70.9    
71.2    
71.5    
71.7    
72.0    
72.3    
72.5    
72.8    
73.0    
73.3    
73.6    
73.8    
74.1    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
75.9    
76.2    
76.4    
76.7    
77.0    
77.2    
77.5    
77.7    
78.0    
78.3    
78.5    
78.8    
79.1    
79.3    
79.6    
79.8    
80.1    
80.4    
80.6    
80.9    
81.2    
81.4    
81.7    
81.9    
82.2    
82.5    
82.7    
83.0    
83.2    
83.5    
83.8    
84.0    
84.3    
84.6    
84.8    
85.1    
85.3    
85.6    
85.9    
86.1    
86.4    
86.6    
86.9    
87.2    
87.4    
87.7    
88.0    
88.2    
88.5    
88.7    
89.0    
89.3    
89.5    
89.8    
90.1    
90.3    
90.6    
90.8    
91.1    
91.4    
91.6    
91.9    
92.1    
92.4    
92.7    
92.9    
93.2    
93.5    
93.7    
94.0    
94.2    
94.5    
94.8    
95.0    
95.3    
95.5    
95.8    
96.1    
96.3    
96.6    
96.9    
97.1    
97.4    
97.6    
97.9    
98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 23328, rend_intergenic: 10093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30187, rend_intergenic: 25224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39663, rend_intergenic: 35536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51401, rend_intergenic: 46486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68038, rend_intergenic: 63989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79095, rend_intergenic: 72907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85246, rend_intergenic: 79252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89704, rend_intergenic: 85363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121546, rend_intergenic: 119151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131953, rend_intergenic: 121687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149401, rend_intergenic: 146171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159582, rend_intergenic: 155668  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173427, rend_intergenic: 169847  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174374, rend_intergenic: 173572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200787, rend_intergenic: 175330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support