-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_6815523-6935085

-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 GlimmerHMM_glimmerT_34072-T1
Valid prediction for GlimmerHMM_glimmerT_34080-T1
Valid prediction for snap_scaffold_14-snap.1391-T1
Valid prediction for HiQ_model.g22764.t1
Valid prediction for snap_scaffold_14-snap.1395-T1
Valid prediction for GlimmerHMM_glimmerT_34068-T1
Valid prediction for snap_scaffold_14-snap.1398-T1
Valid prediction for CodingQuarry_transcript_15682-T1
Valid prediction for GlimmerHMM_glimmerT_34069-T1
Valid prediction for GlimmerHMM_glimmerT_34081-T1
Valid prediction for pasa_asmbl_12107.p1
Valid prediction for Augustus_model.g22756.t1
Couldn't classify 85919, 86026
Couldn't classify 94018, 94178
Sorry, prediction pasa_asmbl_12113.p1 fails validation.
(CAG)	 CA	85919-86026	GT	ACG
(TCC)	 AG	86402-86434	GT	AGG
(AAA)	 AG	86915-86991	GT	GGG
(GAA)	 AG	87525-87636	GT	AGG
(GTG)	 AG	87930-88006	GT	AGG
(ATG)	 AG	88374-88491	GT	AGG
(GAC)	 AG	88745-88813	GT	TGG
(CTC)	 AG	89009-89090	GT	AGG
(ACT)	 AG	89867-89994	GT	AGG
(GGT)	 AG	90861-90972	GT	TGG
(GAG)	 AG	91076-91157	GT	AAG
(TGT)	 AG	91267-91347	GT	AGG
(GTA)	 AG	91764-91877	GT	GGG
(CAC)	 AG	91983-92074	GT	AGG
(ACG)	 AG	92190-92346	GT	AGG
(CAA)	 AG	93756-93907	GT	AGG
(GTA)	 AG	94018-94178	AG	CCA
add_exon() Sorry, pasa_asmbl_12113.p1 88374-88491-initial-1 is invalid.
-recovered pasa_asmbl_12113.p1, initial, 88374, 88491
-recovered pasa_asmbl_12113.p1, internal, 86402, 86434
-recovered pasa_asmbl_12113.p1, internal, 86915, 86991
-recovered pasa_asmbl_12113.p1, internal, 87525, 87636
-recovered pasa_asmbl_12113.p1, internal, 87930, 88006
-recovered pasa_asmbl_12113.p1, internal, 88374, 88491
-recovered pasa_asmbl_12113.p1, internal, 88745, 88813
-recovered pasa_asmbl_12113.p1, internal, 89009, 89090
-recovered pasa_asmbl_12113.p1, internal, 89867, 89994
-recovered pasa_asmbl_12113.p1, internal, 90861, 90972
-recovered pasa_asmbl_12113.p1, internal, 91076, 91157
-recovered pasa_asmbl_12113.p1, internal, 91267, 91347
-recovered pasa_asmbl_12113.p1, internal, 91764, 91877
-recovered pasa_asmbl_12113.p1, internal, 91983, 92074
-recovered pasa_asmbl_12113.p1, internal, 92190, 92346
-recovered pasa_asmbl_12113.p1, internal, 93756, 93907
Valid prediction for snap_scaffold_14-snap.1394-T1
Valid prediction for snap_scaffold_14-snap.1392-T1
Valid prediction for snap_scaffold_14-snap.1417-T1
Valid prediction for Augustus_model.g22757.t1
Valid prediction for HiQ_model.g22768.t1
Valid prediction for GlimmerHMM_glimmerT_34070-T1
Valid prediction for snap_scaffold_14-snap.1405-T1
Valid prediction for GlimmerHMM_glimmerT_34076-T1
Valid prediction for pasa_asmbl_12106.p1
Valid prediction for snap_scaffold_14-snap.1399-T1
Valid prediction for GlimmerHMM_glimmerT_34086-T1
Valid prediction for snap_scaffold_14-snap.1416-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_15681-T1
Valid prediction for snap_scaffold_14-snap.1410-T1
Valid prediction for snap_scaffold_14-snap.1396-T1
Valid prediction for HiQ_model.g22760.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.1400-T1
Valid prediction for GlimmerHMM_glimmerT_34078-T1
Valid prediction for GlimmerHMM_glimmerT_34083-T1
Valid prediction for snap_scaffold_14-snap.1411-T1
Valid prediction for snap_scaffold_14-snap.1401-T1
Valid prediction for Augustus_model.g22767.t1
Valid prediction for Augustus_model.g22770.t1
Valid prediction for snap_scaffold_14-snap.1409-T1
Valid prediction for snap_scaffold_14-snap.1403-T1
Couldn't classify 56267, 56379
Sorry, prediction pasa_asmbl_13163.p1 fails validation.
(AGA)	 CC	56267-56379	GT	AGG
(ATG)	 AG	56568-56790	GT	GGG
(CTT)	 AG	56890-57018	AG	AGA
add_exon() Sorry, pasa_asmbl_13163.p1 56568-56790-initial-1 is invalid.
-recovered pasa_asmbl_13163.p1, initial, 56568, 56790
-recovered pasa_asmbl_13163.p1, terminal, 56890, 57018
-recovered pasa_asmbl_13163.p1, internal, 56568, 56790
Valid prediction for HiQ_model.g22766.t1
Valid prediction for Augustus_model.g22769.t1
Valid prediction for Augustus_model.g22759.t1
Valid prediction for GlimmerHMM_glimmerT_34087-T1
Valid prediction for snap_scaffold_14-snap.1397-T1
Valid prediction for snap_scaffold_14-snap.1407-T1
Valid prediction for snap_scaffold_14-snap.1404-T1
Valid prediction for GlimmerHMM_glimmerT_34074-T1
Valid prediction for HiQ_model.g22763.t1
Valid prediction for Augustus_model.g22761.t1
Valid prediction for GlimmerHMM_glimmerT_34084-T1
Valid prediction for GlimmerHMM_glimmerT_34075-T1
Valid prediction for Augustus_model.g22765.t1
Valid prediction for snap_scaffold_14-snap.1402-T1
Valid prediction for GlimmerHMM_glimmerT_34073-T1
Valid prediction for GlimmerHMM_glimmerT_34079-T1
Valid prediction for GlimmerHMM_glimmerT_34085-T1
Valid prediction for snap_scaffold_14-snap.1406-T1
Valid prediction for Augustus_model.g22758.t1
Valid prediction for snap_scaffold_14-snap.1408-T1
Valid prediction for snap_scaffold_14-snap.1393-T1
Valid prediction for GlimmerHMM_glimmerT_34077-T1
Valid prediction for snap_scaffold_14-snap.1412-T1
Valid prediction for GlimmerHMM_glimmerT_34082-T1
Valid prediction for CodingQuarry_transcript_15683-T1
Valid prediction for snap_scaffold_14-snap.1415-T1
Valid prediction for snap_scaffold_14-snap.1414-T1
Valid prediction for snap_scaffold_14-snap.1413-T1
Valid prediction for GlimmerHMM_glimmerT_34071-T1
Valid prediction for pasa_asmbl_13165.p1
Valid prediction for Augustus_model.g22762.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19456, rend_intergenic: 10530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28275, rend_intergenic: 20560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45315, rend_intergenic: 29114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99328, rend_intergenic: 82521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117769, rend_intergenic: 106186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 119563
-exon list size: 274


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.2    
2.5    
2.9    
3.3    
3.6    
4.0    
4.3    
4.7    
5.1    
5.4    
5.8    
6.2    
6.5    
6.9    
7.2    
7.6    
8.0    
8.3    
8.7    
9.1    
9.4    
9.8    
10.1    
10.5    
10.9    
11.2    
11.6    
12.0    
12.3    
12.7    
13.0    
13.4    
13.8    
14.1    
14.5    
14.9    
15.2    
15.6    
15.9    
16.3    
16.7    
17.0    
17.4    
17.8    
18.1    
18.5    
18.8    
19.2    
19.6    
19.9    
20.3    
20.7    
21.0    
21.4    
21.7    
22.1    
22.5    
22.8    
23.2    
23.6    
23.9    
24.3    
24.6    
25.0    
25.4    
25.7    
26.1    
26.4    
26.8    
27.2    
27.5    
27.9    
28.3    
28.6    
29.0    
29.3    
29.7    
30.1    
30.4    
30.8    
31.2    
31.5    
31.9    
32.2    
32.6    
33.0    
33.3    
33.7    
34.1    
34.4    
34.8    
35.1    
35.5    
35.9    
36.2    
36.6    
37.0    
37.3    
37.7    
38.0    
38.4    
38.8    
39.1    
39.5    
39.9    
40.2    
40.6    
40.9    
41.3    
41.7    
42.0    
42.4    
42.8    
43.1    
43.5    
43.8    
44.2    
44.6    
44.9    
45.3    
45.7    
46.0    
46.4    
46.7    
47.1    
47.5    
47.8    
48.2    
48.6    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.4    
51.8    
52.2    
52.5    
52.9    
53.3    
53.6    
54.0    
54.3    
54.7    
55.1    
55.4    
55.8    
56.2    
56.5    
56.9    
57.2    
57.6    
58.0    
58.3    
58.7    
59.1    
59.4    
59.8    
60.1    
60.5    
60.9    
61.2    
61.6    
62.0    
62.3    
62.7    
63.0    
63.4    
63.8    
64.1    
64.5    
64.9    
65.2    
65.6    
65.9    
66.3    
66.7    
67.0    
67.4    
67.8    
68.1    
68.5    
68.8    
69.2    
69.6    
69.9    
70.3    
70.7    
71.0    
71.4    
71.7    
72.1    
72.5    
72.8    
73.2    
73.6    
73.9    
74.3    
74.6    
75.0    
75.4    
75.7    
76.1    
76.4    
76.8    
77.2    
77.5    
77.9    
78.3    
78.6    
79.0    
79.3    
79.7    
80.1    
80.4    
80.8    
81.2    
81.5    
81.9    
82.2    
82.6    
83.0    
83.3    
83.7    
84.1    
84.4    
84.8    
85.1    
85.5    
85.9    
86.2    
86.6    
87.0    
87.3    
87.7    
88.0    
88.4    
88.8    
89.1    
89.5    
89.9    
90.2    
90.6    
90.9    
91.3    
91.7    
92.0    
92.4    
92.8    
93.1    
93.5    
93.8    
94.2    
94.6    
94.9    
95.3    
95.7    
96.0    
96.4    
96.7    
97.1    
97.5    
97.8    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 19456, rend_intergenic: 10530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28275, rend_intergenic: 20560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45315, rend_intergenic: 29114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99328, rend_intergenic: 82521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117769, rend_intergenic: 106186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support