-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_5647774-5859449

-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.g13183.t1
Valid prediction for GlimmerHMM_glimmerT_19816-T1
Valid prediction for GlimmerHMM_glimmerT_19817-T1
Valid prediction for snap_scaffold_8-snap.1154-T1
Valid prediction for GlimmerHMM_glimmerT_19827-T1
Valid prediction for snap_scaffold_8-snap.1139-T1
Valid prediction for snap_scaffold_8-snap.1134-T1
Valid prediction for snap_scaffold_8-snap.1128-T1
Valid prediction for Augustus_model.g13190.t1
Valid prediction for CodingQuarry_transcript_59658-T1
Valid prediction for Augustus_model.g13181.t1
Valid prediction for CodingQuarry_transcript_59660-T1
Valid prediction for GlimmerHMM_glimmerT_19823-T1
Valid prediction for Augustus_model.g13178.t1
Valid prediction for snap_scaffold_8-snap.1146-T1
Valid prediction for snap_scaffold_8-snap.1151-T1
Valid prediction for snap_scaffold_8-snap.1126-T1
Couldn't classify 91104, 91262
Sorry, prediction pasa_asmbl_52902.p1 fails validation.
(GGG)	 CA	91104-91262	GT	TGG
(AGC)	 AG	94063-94192	GT	CGG
(AGT)	 AG	94334-94460	GT	GTG
(GTC)	 AG	94581-94941	AA	AAA
-recovered pasa_asmbl_52902.p1, terminal, 94581, 94941
-recovered pasa_asmbl_52902.p1, internal, 94063, 94192
-recovered pasa_asmbl_52902.p1, internal, 94334, 94460
Valid prediction for snap_scaffold_8-snap.1141-T1
Valid prediction for Augustus_model.g13182.t1
Valid prediction for snap_scaffold_8-snap.1148-T1
Valid prediction for snap_scaffold_8-snap.1143-T1
Valid prediction for snap_scaffold_8-snap.1132-T1
Valid prediction for GlimmerHMM_glimmerT_19822-T1
Valid prediction for GlimmerHMM_glimmerT_19831-T1
Couldn't classify 53342, 53421
Sorry, prediction pasa_asmbl_52896.p1 fails validation.
(ATG)	 AA	47195-47362	GT	TGG
(CCC)	 AG	47505-47545	GT	TTG
(GTA)	 AG	47898-47935	GT	AGG
(CTA)	 AG	48060-48197	GT	AGG
(AGA)	 AG	50792-50998	GT	GGG
(ATT)	 AG	53342-53421	AA	ACA
-recovered pasa_asmbl_52896.p1, initial, 47195, 47362
-recovered pasa_asmbl_52896.p1, internal, 47505, 47545
-recovered pasa_asmbl_52896.p1, internal, 47898, 47935
-recovered pasa_asmbl_52896.p1, internal, 48060, 48197
-recovered pasa_asmbl_52896.p1, internal, 50792, 50998
Valid prediction for snap_scaffold_8-snap.1158-T1
Valid prediction for snap_scaffold_8-snap.1145-T1
Valid prediction for GlimmerHMM_glimmerT_19820-T1
Valid prediction for snap_scaffold_8-snap.1144-T1
Couldn't classify 38449, 38775
Sorry, prediction pasa_asmbl_52891.p1 fails validation.
(TGT)	 AT	38449-38775	CC	CGC
Couldn't classify 110301, 110318
Couldn't classify 116541, 116566
Sorry, prediction pasa_asmbl_52906.p1 fails validation.
(CCA)	 AT	110301-110318	GT	AGG
(ATC)	 AG	110453-110572	GT	TGG
(ATC)	 AG	113024-113137	GT	TGG
(GAC)	 AG	113614-113655	GT	AGG
(GAA)	 AG	115914-116023	GT	AAG
(CAC)	 AG	116299-116408	GT	GGG
(GTA)	 AG	116541-116566	CG	TAC
-recovered pasa_asmbl_52906.p1, internal, 110453, 110572
-recovered pasa_asmbl_52906.p1, internal, 113024, 113137
-recovered pasa_asmbl_52906.p1, internal, 113614, 113655
-recovered pasa_asmbl_52906.p1, internal, 115914, 116023
-recovered pasa_asmbl_52906.p1, internal, 116299, 116408
Valid prediction for Augustus_model.g13176.t1
Valid prediction for GlimmerHMM_glimmerT_19819-T1
Valid prediction for Augustus_model.g13187.t1
Valid prediction for snap_scaffold_8-snap.1153-T1
Valid prediction for snap_scaffold_8-snap.1147-T1
Valid prediction for snap_scaffold_8-snap.1138-T1
Valid prediction for Augustus_model.g13179.t1
Couldn't classify 31541, 31599
Couldn't classify 34179, 34309
Sorry, prediction pasa_asmbl_52890.p1 fails validation.
(GCG)	 TG	31541-31599	GT	AGG
(GAA)	 AG	31977-32047	GT	GAG
(TGT)	 AG	32907-33136	GT	TGG
(GTG)	 AG	33249-33356	GT	AGG
(CAA)	 AG	33838-34000	GT	AGG
(ACT)	 AG	34179-34309	TA	GGT
-recovered pasa_asmbl_52890.p1, internal, 31977, 32047
-recovered pasa_asmbl_52890.p1, internal, 32907, 33136
-recovered pasa_asmbl_52890.p1, internal, 33249, 33356
-recovered pasa_asmbl_52890.p1, internal, 33838, 34000
Couldn't classify 26226, 26250
Couldn't classify 26709, 26943
Sorry, prediction pasa_asmbl_53645.p1 fails validation.
(CGC)	 TC	26226-26250	GT	CTG
(GTG)	 AG	26452-26578	GT	GCG
(TCC)	 AG	26709-26943	GG	CAG
-recovered pasa_asmbl_53645.p1, internal, 26452, 26578
Valid prediction for Augustus_model.g13184.t1
Valid prediction for snap_scaffold_8-snap.1135-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.g13189.t1
Valid prediction for snap_scaffold_8-snap.1130-T1
Valid prediction for snap_scaffold_8-snap.1131-T1
Valid prediction for CodingQuarry_transcript_59659-T1
Valid prediction for Augustus_model.g13177.t1
Valid prediction for GlimmerHMM_glimmerT_19825-T1
Valid prediction for snap_scaffold_8-snap.1159-T1
Valid prediction for Augustus_model.g13180.t1
Valid prediction for GlimmerHMM_glimmerT_19824-T1
Valid prediction for GlimmerHMM_glimmerT_19821-T1
Valid prediction for snap_scaffold_8-snap.1142-T1
Valid prediction for Augustus_model.g13186.t1
Valid prediction for GlimmerHMM_glimmerT_19829-T1
Valid prediction for snap_scaffold_8-snap.1149-T1
Valid prediction for Augustus_model.g13188.t1
Couldn't classify 24863, 24975
Sorry, prediction pasa_asmbl_51847.p1 fails validation.
(AAC)	 TG	24863-24975	GT	AGG
(GAA)	 AG	25645-25765	GT	GGG
(AAA)	 AG	25893-26352	GT	TGG
(AAC)	 AG	27014-27068	GT	CTG
(GGC)	 AG	27252-27423	GT	AGG
(GTT)	 AG	27520-27564	GT	AGG
(AAG)	 AG	27672-27782	TG	AGT
-recovered pasa_asmbl_51847.p1, terminal, 27672, 27782
-recovered pasa_asmbl_51847.p1, internal, 25645, 25765
-recovered pasa_asmbl_51847.p1, internal, 25893, 26352
-recovered pasa_asmbl_51847.p1, internal, 27014, 27068
-recovered pasa_asmbl_51847.p1, internal, 27252, 27423
-recovered pasa_asmbl_51847.p1, internal, 27520, 27564
Valid prediction for snap_scaffold_8-snap.1129-T1
Valid prediction for snap_scaffold_8-snap.1155-T1
Valid prediction for snap_scaffold_8-snap.1137-T1
Valid prediction for snap_scaffold_8-snap.1140-T1
Valid prediction for snap_scaffold_8-snap.1127-T1
Valid prediction for GlimmerHMM_glimmerT_19814-T1
Valid prediction for snap_scaffold_8-snap.1152-T1
Valid prediction for GlimmerHMM_glimmerT_19818-T1
Valid prediction for snap_scaffold_8-snap.1150-T1
Valid prediction for snap_scaffold_8-snap.1157-T1
Valid prediction for GlimmerHMM_glimmerT_19815-T1
Valid prediction for GlimmerHMM_glimmerT_19826-T1
Valid prediction for GlimmerHMM_glimmerT_19830-T1
Valid prediction for Augustus_model.g13185.t1
Valid prediction for GlimmerHMM_glimmerT_19828-T1
Valid prediction for snap_scaffold_8-snap.1133-T1
Valid prediction for snap_scaffold_8-snap.1136-T1
Valid prediction for snap_scaffold_8-snap.1156-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 22555, rend_intergenic: 19170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34143, rend_intergenic: 28705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38711, rend_intergenic: 34187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115637, rend_intergenic: 113709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191601, rend_intergenic: 189305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 211676
-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 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 22555, rend_intergenic: 19170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34143, rend_intergenic: 28705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38711, rend_intergenic: 34187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115637, rend_intergenic: 113709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191601, rend_intergenic: 189305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support