-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_7059475-7339404

-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 Augustus_model.g13300.t1
Valid prediction for GlimmerHMM_glimmerT_20001-T1
Valid prediction for GlimmerHMM_glimmerT_19976-T1
Valid prediction for GlimmerHMM_glimmerT_19983-T1
Valid prediction for GlimmerHMM_glimmerT_19988-T1
Valid prediction for GlimmerHMM_glimmerT_19985-T1
Valid prediction for GlimmerHMM_glimmerT_19993-T1
Valid prediction for GlimmerHMM_glimmerT_19981-T1
Valid prediction for snap_scaffold_8-snap.1373-T1
Valid prediction for snap_scaffold_8-snap.1374-T1
Valid prediction for Augustus_model.g13302.t1
Valid prediction for snap_scaffold_8-snap.1380-T1
Valid prediction for GlimmerHMM_glimmerT_19978-T1
Valid prediction for snap_scaffold_8-snap.1393-T1
Valid prediction for snap_scaffold_8-snap.1391-T1
Valid prediction for snap_scaffold_8-snap.1371-T1
Valid prediction for Augustus_model.g13299.t1
Valid prediction for snap_scaffold_8-snap.1394-T1
Valid prediction for GlimmerHMM_glimmerT_19986-T1
Valid prediction for GlimmerHMM_glimmerT_19992-T1
Valid prediction for snap_scaffold_8-snap.1384-T1
Valid prediction for snap_scaffold_8-snap.1370-T1
Valid prediction for snap_scaffold_8-snap.1375-T1
Valid prediction for snap_scaffold_8-snap.1390-T1
Valid prediction for GlimmerHMM_glimmerT_19991-T1
Valid prediction for snap_scaffold_8-snap.1382-T1
Valid prediction for snap_scaffold_8-snap.1387-T1
Valid prediction for GlimmerHMM_glimmerT_19982-T1
Valid prediction for Augustus_model.g13295.t1
Valid prediction for snap_scaffold_8-snap.1400-T1
Valid prediction for GlimmerHMM_glimmerT_19977-T1
Valid prediction for Augustus_model.g13296.t1
Valid prediction for snap_scaffold_8-snap.1378-T1
Valid prediction for snap_scaffold_8-snap.1397-T1
Valid prediction for snap_scaffold_8-snap.1402-T1
Valid prediction for Augustus_model.g13301.t1
Valid prediction for GlimmerHMM_glimmerT_19980-T1
Valid prediction for GlimmerHMM_glimmerT_19989-T1
Valid prediction for snap_scaffold_8-snap.1379-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_8-snap.1385-T1
Valid prediction for Augustus_model.g13306.t1
Valid prediction for HiQ_model.g13304.t1
Valid prediction for snap_scaffold_8-snap.1401-T1
Couldn't classify 30120, 30203
Sorry, prediction pasa_asmbl_51895.p1 fails validation.
(TCT)	 AA	30120-30203	GT	TGG
(GAG)	 AG	30848-31150	GT	TGG
(GAC)	 AG	32015-32120	GT	AGG
(TCG)	 AG	34820-35202	GT	TGG
(GAG)	 AG	35381-35546	GT	AGG
(CGT)	 AG	35655-35796	GT	TGG
(TCT)	 AG	35963-36085	GT	ATG
(ACA)	 AG	36217-36308	GT	AGG
(ACC)	 AG	36394-36460	GT	AGG
(GTC)	 AG	36604-36736	GT	AGG
(GCG)	 AG	36934-37042	GT	CAG
(CTC)	 AG	37127-37245	GT	AAG
(GTC)	 AG	37668-37884	GT	CGG
(GAG)	 AG	38759-38943	AG	AGA
add_exon() Sorry, pasa_asmbl_51895.p1 35381-35546-terminal-3 is invalid.
-recovered pasa_asmbl_51895.p1, terminal, 35381, 35546
-recovered pasa_asmbl_51895.p1, terminal, 38759, 38943
-recovered pasa_asmbl_51895.p1, internal, 30848, 31150
-recovered pasa_asmbl_51895.p1, internal, 32015, 32120
-recovered pasa_asmbl_51895.p1, internal, 34820, 35202
-recovered pasa_asmbl_51895.p1, internal, 35381, 35546
-recovered pasa_asmbl_51895.p1, internal, 35655, 35796
-recovered pasa_asmbl_51895.p1, internal, 35963, 36085
-recovered pasa_asmbl_51895.p1, internal, 36217, 36308
-recovered pasa_asmbl_51895.p1, internal, 36394, 36460
-recovered pasa_asmbl_51895.p1, internal, 36604, 36736
-recovered pasa_asmbl_51895.p1, internal, 36934, 37042
-recovered pasa_asmbl_51895.p1, internal, 37127, 37245
-recovered pasa_asmbl_51895.p1, internal, 37668, 37884
Valid prediction for GlimmerHMM_glimmerT_19990-T1
Valid prediction for snap_scaffold_8-snap.1372-T1
Couldn't classify 7637, 7732
Couldn't classify 10726, 10778
Sorry, prediction pasa_asmbl_52594.p1 fails validation.
(GAG)	 AG	7637-7732	GT	AGG
(GAC)	 AG	9562-9709	GT	AGG
(ACA)	 AG	10726-10778	GC	GTG
-recovered pasa_asmbl_52594.p1, internal, 7637, 7732
-recovered pasa_asmbl_52594.p1, internal, 9562, 9709
-recovered pasa_asmbl_52594.p1, internal, 10726, 10778
Valid prediction for snap_scaffold_8-snap.1396-T1
Valid prediction for snap_scaffold_8-snap.1388-T1
Valid prediction for snap_scaffold_8-snap.1383-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.1399-T1
Valid prediction for GlimmerHMM_glimmerT_19987-T1
Valid prediction for snap_scaffold_8-snap.1389-T1
Valid prediction for snap_scaffold_8-snap.1381-T1
Valid prediction for GlimmerHMM_glimmerT_19994-T1
Valid prediction for Augustus_model.g13307.t1
Valid prediction for Augustus_model.g13303.t1
Valid prediction for GlimmerHMM_glimmerT_19979-T1
Valid prediction for GlimmerHMM_glimmerT_20000-T1
Valid prediction for GlimmerHMM_glimmerT_19984-T1
Valid prediction for Augustus_model.g13305.t1
Valid prediction for snap_scaffold_8-snap.1395-T1
Valid prediction for Augustus_model.g13298.t1
Valid prediction for snap_scaffold_8-snap.1398-T1
Valid prediction for snap_scaffold_8-snap.1386-T1
Valid prediction for snap_scaffold_8-snap.1392-T1
Valid prediction for GlimmerHMM_glimmerT_19997-T1
Valid prediction for Augustus_model.g13297.t1
Valid prediction for GlimmerHMM_glimmerT_19999-T1
Valid prediction for snap_scaffold_8-snap.1376-T1
Valid prediction for GlimmerHMM_glimmerT_19998-T1
Valid prediction for GlimmerHMM_glimmerT_19995-T1
Valid prediction for GlimmerHMM_glimmerT_19996-T1
Valid prediction for snap_scaffold_8-snap.1403-T1
Valid prediction for snap_scaffold_8-snap.1377-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 151400, rend_intergenic: 145419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203855, rend_intergenic: 201154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 212955, rend_intergenic: 211982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 244951, rend_intergenic: 240988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 268950, rend_intergenic: 267581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 273336, rend_intergenic: 271377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 279930
-exon list size: 258


building trellis

0.4    
0.8    
1.2    
1.5    
1.9    
2.3    
2.7    
3.1    
3.5    
3.8    
4.2    
4.6    
5.0    
5.4    
5.8    
6.2    
6.5    
6.9    
7.3    
7.7    
8.1    
8.5    
8.8    
9.2    
9.6    
10.0    
10.4    
10.8    
11.2    
11.5    
11.9    
12.3    
12.7    
13.1    
13.5    
13.8    
14.2    
14.6    
15.0    
15.4    
15.8    
16.2    
16.5    
16.9    
17.3    
17.7    
18.1    
18.5    
18.8    
19.2    
19.6    
20.0    
20.4    
20.8    
21.2    
21.5    
21.9    
22.3    
22.7    
23.1    
23.5    
23.8    
24.2    
24.6    
25.0    
25.4    
25.8    
26.2    
26.5    
26.9    
27.3    
27.7    
28.1    
28.5    
28.8    
29.2    
29.6    
30.0    
30.4    
30.8    
31.2    
31.5    
31.9    
32.3    
32.7    
33.1    
33.5    
33.8    
34.2    
34.6    
35.0    
35.4    
35.8    
36.2    
36.5    
36.9    
37.3    
37.7    
38.1    
38.5    
38.8    
39.2    
39.6    
40.0    
40.4    
40.8    
41.2    
41.5    
41.9    
42.3    
42.7    
43.1    
43.5    
43.8    
44.2    
44.6    
45.0    
45.4    
45.8    
46.2    
46.5    
46.9    
47.3    
47.7    
48.1    
48.5    
48.8    
49.2    
49.6    
50.0    
50.4    
50.8    
51.2    
51.5    
51.9    
52.3    
52.7    
53.1    
53.5    
53.8    
54.2    
54.6    
55.0    
55.4    
55.8    
56.2    
56.5    
56.9    
57.3    
57.7    
58.1    
58.5    
58.8    
59.2    
59.6    
60.0    
60.4    
60.8    
61.2    
61.5    
61.9    
62.3    
62.7    
63.1    
63.5    
63.8    
64.2    
64.6    
65.0    
65.4    
65.8    
66.2    
66.5    
66.9    
67.3    
67.7    
68.1    
68.5    
68.8    
69.2    
69.6    
70.0    
70.4    
70.8    
71.2    
71.5    
71.9    
72.3    
72.7    
73.1    
73.5    
73.8    
74.2    
74.6    
75.0    
75.4    
75.8    
76.2    
76.5    
76.9    
77.3    
77.7    
78.1    
78.5    
78.8    
79.2    
79.6    
80.0    
80.4    
80.8    
81.2    
81.5    
81.9    
82.3    
82.7    
83.1    
83.5    
83.8    
84.2    
84.6    
85.0    
85.4    
85.8    
86.2    
86.5    
86.9    
87.3    
87.7    
88.1    
88.5    
88.8    
89.2    
89.6    
90.0    
90.4    
90.8    
91.2    
91.5    
91.9    
92.3    
92.7    
93.1    
93.5    
93.8    
94.2    
94.6    
95.0    
95.4    
95.8    
96.2    
96.5    
96.9    
97.3    
97.7    
98.1    
98.5    
98.8    
99.2    
99.6    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 151400, rend_intergenic: 145419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203855, rend_intergenic: 201154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 212955, rend_intergenic: 211982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 244951, rend_intergenic: 240988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 268950, rend_intergenic: 267581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 273336, rend_intergenic: 271377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support