-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_6436653-6575694

-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 CodingQuarry_transcript_15672-T1
Valid prediction for GlimmerHMM_glimmerT_34034-T1
Valid prediction for GlimmerHMM_glimmerT_34037-T1
Valid prediction for snap_scaffold_14-snap.1329-T1
Valid prediction for snap_scaffold_14-snap.1340-T1
Couldn't classify 68340, 68398
Couldn't classify 69649, 69741
Sorry, prediction pasa_asmbl_12080.p1 fails validation.
(GTC)	 CT	68340-68398	GT	GGG
(AAC)	 AG	68975-69099	GT	AGG
(GGA)	 AG	69195-69310	GT	CCG
(TCT)	 AG	69649-69741	CC	TCC
-recovered pasa_asmbl_12080.p1, internal, 68975, 69099
-recovered pasa_asmbl_12080.p1, internal, 69195, 69310
Valid prediction for GlimmerHMM_glimmerT_34032-T1
Valid prediction for GlimmerHMM_glimmerT_34031-T1
Valid prediction for GlimmerHMM_glimmerT_34021-T1
Couldn't classify 71367, 71828
Sorry, prediction pasa_asmbl_12081.p1 fails validation.
(GCC)	 AT	71367-71828	CC	CCC
Valid prediction for GlimmerHMM_glimmerT_34019-T1
Valid prediction for GlimmerHMM_glimmerT_34030-T1
Couldn't classify 72357, 73418
Sorry, prediction pasa_asmbl_12082.p1 fails validation.
(ATG)	 AC	72357-73418	AC	GCA
Valid prediction for snap_scaffold_14-snap.1347-T1
Valid prediction for snap_scaffold_14-snap.1337-T1
Valid prediction for snap_scaffold_14-snap.1348-T1
Valid prediction for snap_scaffold_14-snap.1321-T1
Valid prediction for HiQ_model.g22723.t1
Valid prediction for snap_scaffold_14-snap.1336-T1
Valid prediction for snap_scaffold_14-snap.1341-T1
Valid prediction for GlimmerHMM_glimmerT_34015-T1
Valid prediction for GlimmerHMM_glimmerT_34026-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for snap_scaffold_14-snap.1331-T1
Valid prediction for HiQ_model.g22734.t1
Valid prediction for snap_scaffold_14-snap.1324-T1
Valid prediction for snap_scaffold_14-snap.1343-T1
Valid prediction for GlimmerHMM_glimmerT_34029-T1
Valid prediction for Augustus_model.g22729.t1
Valid prediction for GlimmerHMM_glimmerT_34025-T1
Valid prediction for CodingQuarry_transcript_15669-T1
Valid prediction for pasa_asmbl_12085.p1
Valid prediction for Augustus_model.g22732.t1
Valid prediction for snap_scaffold_14-snap.1334-T1
Valid prediction for GlimmerHMM_glimmerT_34010-T1
Valid prediction for Augustus_model.g22728.t1
Valid prediction for snap_scaffold_14-snap.1322-T1
Valid prediction for GlimmerHMM_glimmerT_34028-T1
Valid prediction for snap_scaffold_14-snap.1328-T1
Valid prediction for snap_scaffold_14-snap.1333-T1
Valid prediction for Augustus_model.g22727.t1
Valid prediction for GlimmerHMM_glimmerT_34033-T1
Valid prediction for GlimmerHMM_glimmerT_34023-T1
Valid prediction for GlimmerHMM_glimmerT_34022-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_34035-T1
Valid prediction for snap_scaffold_14-snap.1332-T1
Valid prediction for snap_scaffold_14-snap.1346-T1
Valid prediction for GlimmerHMM_glimmerT_34013-T1
Valid prediction for snap_scaffold_14-snap.1349-T1
Valid prediction for Augustus_model.g22730.t1
Valid prediction for HiQ_model.g22722.t1
Valid prediction for HiQ_model.g22721.t1
Valid prediction for GlimmerHMM_glimmerT_34017-T1
Valid prediction for snap_scaffold_14-snap.1320-T1
Valid prediction for snap_scaffold_14-snap.1339-T1
Valid prediction for Augustus_model.g22731.t1
Valid prediction for Augustus_model.g22725.t1
Valid prediction for snap_scaffold_14-snap.1345-T1
Valid prediction for GlimmerHMM_glimmerT_34016-T1
Valid prediction for snap_scaffold_14-snap.1330-T1
Valid prediction for snap_scaffold_14-snap.1338-T1
Valid prediction for pasa_asmbl_13801.p1
Valid prediction for snap_scaffold_14-snap.1323-T1
Valid prediction for snap_scaffold_14-snap.1326-T1
Valid prediction for GlimmerHMM_glimmerT_34020-T1
Valid prediction for GlimmerHMM_glimmerT_34027-T1
Valid prediction for Augustus_model.g22726.t1
Valid prediction for snap_scaffold_14-snap.1327-T1
Valid prediction for CodingQuarry_transcript_15671-T1
Valid prediction for CodingQuarry_transcript_15668-T1
Valid prediction for snap_scaffold_14-snap.1319-T1
Valid prediction for CodingQuarry_transcript_15667-T1
Valid prediction for snap_scaffold_14-snap.1342-T1
Valid prediction for CodingQuarry_transcript_15666-T1
Valid prediction for pasa_asmbl_13140.p1
Valid prediction for GlimmerHMM_glimmerT_34036-T1
Valid prediction for snap_scaffold_14-snap.1318-T1
Valid prediction for snap_scaffold_14-snap.1344-T1
Valid prediction for GlimmerHMM_glimmerT_34024-T1
Valid prediction for Augustus_model.g22724.t1
Valid prediction for snap_scaffold_14-snap.1325-T1
Valid prediction for GlimmerHMM_glimmerT_34012-T1
Couldn't classify 106574, 106657
Sorry, prediction pasa_asmbl_13138.p1 fails validation.
(ATC)	 AG	106574-106657	GT	AGG
(TGG)	 AG	106754-106820	GT	AGG
(CTG)	 AG	108123-108242	GT	AGG
(AAT)	 AG	108400-108563	CA	GAC
-recovered pasa_asmbl_13138.p1, terminal, 108400, 108563
-recovered pasa_asmbl_13138.p1, internal, 106574, 106657
-recovered pasa_asmbl_13138.p1, internal, 106754, 106820
-recovered pasa_asmbl_13138.p1, internal, 108123, 108242
Valid prediction for pasa_asmbl_13134.p1
Valid prediction for GlimmerHMM_glimmerT_34018-T1
Valid prediction for CodingQuarry_transcript_15670-T1
Valid prediction for snap_scaffold_14-snap.1335-T1
Valid prediction for GlimmerHMM_glimmerT_34014-T1
Valid prediction for GlimmerHMM_glimmerT_34011-T1
Valid prediction for Augustus_model.g22733.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 27025, rend_intergenic: 26755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33994, rend_intergenic: 30480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55940, rend_intergenic: 53626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58371, rend_intergenic: 56719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66386, rend_intergenic: 59386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73496, rend_intergenic: 67906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106778, rend_intergenic: 97291  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134912, rend_intergenic: 128475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 139042
-exon list size: 270


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.6    
2.9    
3.3    
3.7    
4.0    
4.4    
4.8    
5.1    
5.5    
5.9    
6.2    
6.6    
7.0    
7.4    
7.7    
8.1    
8.5    
8.8    
9.2    
9.6    
9.9    
10.3    
10.7    
11.0    
11.4    
11.8    
12.1    
12.5    
12.9    
13.2    
13.6    
14.0    
14.3    
14.7    
15.1    
15.4    
15.8    
16.2    
16.5    
16.9    
17.3    
17.6    
18.0    
18.4    
18.8    
19.1    
19.5    
19.9    
20.2    
20.6    
21.0    
21.3    
21.7    
22.1    
22.4    
22.8    
23.2    
23.5    
23.9    
24.3    
24.6    
25.0    
25.4    
25.7    
26.1    
26.5    
26.8    
27.2    
27.6    
27.9    
28.3    
28.7    
29.0    
29.4    
29.8    
30.1    
30.5    
30.9    
31.2    
31.6    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.6    
34.9    
35.3    
35.7    
36.0    
36.4    
36.8    
37.1    
37.5    
37.9    
38.2    
38.6    
39.0    
39.3    
39.7    
40.1    
40.4    
40.8    
41.2    
41.5    
41.9    
42.3    
42.6    
43.0    
43.4    
43.8    
44.1    
44.5    
44.9    
45.2    
45.6    
46.0    
46.3    
46.7    
47.1    
47.4    
47.8    
48.2    
48.5    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.5    
51.8    
52.2    
52.6    
52.9    
53.3    
53.7    
54.0    
54.4    
54.8    
55.1    
55.5    
55.9    
56.2    
56.6    
57.0    
57.4    
57.7    
58.1    
58.5    
58.8    
59.2    
59.6    
59.9    
60.3    
60.7    
61.0    
61.4    
61.8    
62.1    
62.5    
62.9    
63.2    
63.6    
64.0    
64.3    
64.7    
65.1    
65.4    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.4    
68.8    
69.1    
69.5    
69.9    
70.2    
70.6    
71.0    
71.3    
71.7    
72.1    
72.4    
72.8    
73.2    
73.5    
73.9    
74.3    
74.6    
75.0    
75.4    
75.7    
76.1    
76.5    
76.8    
77.2    
77.6    
77.9    
78.3    
78.7    
79.0    
79.4    
79.8    
80.1    
80.5    
80.9    
81.2    
81.6    
82.0    
82.4    
82.7    
83.1    
83.5    
83.8    
84.2    
84.6    
84.9    
85.3    
85.7    
86.0    
86.4    
86.8    
87.1    
87.5    
87.9    
88.2    
88.6    
89.0    
89.3    
89.7    
90.1    
90.4    
90.8    
91.2    
91.5    
91.9    
92.3    
92.6    
93.0    
93.4    
93.8    
94.1    
94.5    
94.9    
95.2    
95.6    
96.0    
96.3    
96.7    
97.1    
97.4    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 27025, rend_intergenic: 26755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33994, rend_intergenic: 30480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55940, rend_intergenic: 53626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58371, rend_intergenic: 56719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66386, rend_intergenic: 59386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73496, rend_intergenic: 67906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106778, rend_intergenic: 97291  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134912, rend_intergenic: 128475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support