-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_5919117-6150673

-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_11-snap.1439-T1
Valid prediction for snap_scaffold_11-snap.1457-T1
Valid prediction for snap_scaffold_11-snap.1451-T1
Valid prediction for Augustus_model.g18003.t1
Valid prediction for GlimmerHMM_glimmerT_27194-T1
Valid prediction for snap_scaffold_11-snap.1453-T1
Valid prediction for HiQ_model.g18005.t1
Couldn't classify 82708, 82731
Sorry, prediction pasa_asmbl_5598.p2 fails validation.
(CAC)	 GA	82708-82731	GT	AGG
(AAT)	 AG	83158-83249	GT	AGG
(ATT)	 AG	83448-83637	TG	GAT
-recovered pasa_asmbl_5598.p2, terminal, 83448, 83637
-recovered pasa_asmbl_5598.p2, internal, 83158, 83249
Valid prediction for snap_scaffold_11-snap.1431-T1
Valid prediction for GlimmerHMM_glimmerT_27205-T1
Valid prediction for snap_scaffold_11-snap.1427-T1
Valid prediction for snap_scaffold_11-snap.1425-T1
Valid prediction for snap_scaffold_11-snap.1462-T1
Valid prediction for pasa_asmbl_5605.p1
Valid prediction for CodingQuarry_transcript_8086-T1
Valid prediction for snap_scaffold_11-snap.1448-T1
Valid prediction for snap_scaffold_11-snap.1446-T1
Couldn't classify 101292, 101399
Sorry, prediction pasa_asmbl_5603.p1 fails validation.
(AAC)	 TC	101292-101399	GT	GGG
(AAC)	 AG	101509-101805	GT	AGG
(CTG)	 AG	102016-102831	AT	AGA
-recovered pasa_asmbl_5603.p1, terminal, 102016, 102831
-recovered pasa_asmbl_5603.p1, internal, 101509, 101805
Valid prediction for Augustus_model.g18004.t1
Valid prediction for snap_scaffold_11-snap.1449-T1
Valid prediction for pasa_asmbl_5600.p1
Valid prediction for GlimmerHMM_glimmerT_27204-T1
Valid prediction for snap_scaffold_11-snap.1442-T1
Valid prediction for GlimmerHMM_glimmerT_27207-T1
Valid prediction for snap_scaffold_11-snap.1440-T1
Valid prediction for GlimmerHMM_glimmerT_27203-T1
Valid prediction for GlimmerHMM_glimmerT_27211-T1
Valid prediction for snap_scaffold_11-snap.1436-T1
Couldn't classify 183975, 184331
Sorry, prediction pasa_asmbl_5611.p1 fails validation.
(TTC)	 AC	183975-184331	AC	AGA
Valid prediction for snap_scaffold_11-snap.1461-T1
Valid prediction for GlimmerHMM_glimmerT_27206-T1
Valid prediction for snap_scaffold_11-snap.1432-T1
Valid prediction for Augustus_model.g18006.t1
Valid prediction for GlimmerHMM_glimmerT_27201-T1
Valid prediction for GlimmerHMM_glimmerT_27216-T1
Valid prediction for GlimmerHMM_glimmerT_27195-T1
Valid prediction for snap_scaffold_11-snap.1424-T1
Valid prediction for Augustus_model.g18011.t1
Valid prediction for snap_scaffold_11-snap.1429-T1
Valid prediction for CodingQuarry_transcript_8090-T1
Valid prediction for snap_scaffold_11-snap.1443-T1
Valid prediction for snap_scaffold_11-snap.1435-T1
Valid prediction for Augustus_model.g17993.t1
Valid prediction for Augustus_model.g18007.t1
Valid prediction for snap_scaffold_11-snap.1428-T1
Valid prediction for HiQ_model.g18000.t1
Valid prediction for Augustus_model.g17997.t1
Valid prediction for GlimmerHMM_glimmerT_27197-T1
Couldn't classify 725, 886
Sorry, prediction pasa_asmbl_5593.p1 fails validation.
(TGC)	 CG	725-886	GT	AGG
(TTC)	 AG	1079-1228	GT	TGG
(GTG)	 AG	1444-1586	GT	CCG
(AGA)	 AG	1906-2338	GT	CGG
(GTG)	 AG	2734-3084	GT	AGG
(CTG)	 AG	3326-3502	GT	AGG
(CAG)	 AG	3801-3857	GT	AGG
(GTG)	 AG	4239-4388	AG	GAA
-recovered pasa_asmbl_5593.p1, terminal, 4239, 4388
-recovered pasa_asmbl_5593.p1, internal, 1079, 1228
-recovered pasa_asmbl_5593.p1, internal, 1444, 1586
-recovered pasa_asmbl_5593.p1, internal, 1906, 2338
-recovered pasa_asmbl_5593.p1, internal, 2734, 3084
-recovered pasa_asmbl_5593.p1, internal, 3326, 3502
-recovered pasa_asmbl_5593.p1, internal, 3801, 3857
Valid prediction for snap_scaffold_11-snap.1445-T1
Valid prediction for HiQ_model.g17996.t1
Valid prediction for CodingQuarry_transcript_8088-T1
Valid prediction for snap_scaffold_11-snap.1459-T1
Valid prediction for GlimmerHMM_glimmerT_27208-T1
Valid prediction for GlimmerHMM_glimmerT_27193-T1
Valid prediction for GlimmerHMM_glimmerT_27200-T1
Couldn't classify 117808, 117837
Couldn't classify 119520, 119753
Sorry, prediction pasa_asmbl_6360.p1 fails validation.
(CAA)	 TG	117808-117837	GT	AGG
(CTT)	 AG	118286-118402	GT	GGG
(GTG)	 AG	119520-119753	GG	AGG
-recovered pasa_asmbl_6360.p1, internal, 118286, 118402
Valid prediction for HiQ_model.g18001.t1
Valid prediction for CodingQuarry_transcript_8089-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_11-snap.1447-T1
Valid prediction for snap_scaffold_11-snap.1430-T1
Valid prediction for GlimmerHMM_glimmerT_27196-T1
Valid prediction for HiQ_model.g18008.t1
Valid prediction for snap_scaffold_11-snap.1454-T1
Valid prediction for snap_scaffold_11-snap.1423-T1
Valid prediction for GlimmerHMM_glimmerT_27192-T1
Valid prediction for GlimmerHMM_glimmerT_27215-T1
Valid prediction for Augustus_model.g18010.t1
Valid prediction for snap_scaffold_11-snap.1444-T1
Valid prediction for snap_scaffold_11-snap.1426-T1
Valid prediction for HiQ_model.g18012.t1
Valid prediction for snap_scaffold_11-snap.1460-T1
Valid prediction for GlimmerHMM_glimmerT_27210-T1
Valid prediction for GlimmerHMM_glimmerT_27218-T1
Valid prediction for snap_scaffold_11-snap.1437-T1
Valid prediction for pasa_asmbl_6695.p1
Valid prediction for HiQ_model.g17999.t1
Valid prediction for snap_scaffold_11-snap.1452-T1
Valid prediction for snap_scaffold_11-snap.1463-T1
Valid prediction for GlimmerHMM_glimmerT_27202-T1
Valid prediction for Augustus_model.g18009.t1
Valid prediction for GlimmerHMM_glimmerT_27199-T1
Valid prediction for GlimmerHMM_glimmerT_27213-T1
Valid prediction for snap_scaffold_11-snap.1433-T1
Valid prediction for CodingQuarry_transcript_8087-T1
Valid prediction for Augustus_model.g18002.t1
Couldn't classify 28050, 28072
Sorry, prediction pasa_asmbl_6697.p1 fails validation.
(CAC)	 CC	28050-28072	GT	AAG
(GTT)	 AG	28163-28336	GT	AAG
(CTG)	 AG	28462-28524	GT	ACG
(GGT)	 AG	28658-28883	GT	AGG
(GTG)	 AG	29365-29502	GT	AGG
(GTG)	 AG	30196-30297	GT	AGG
(TCT)	 AG	30693-30764	GT	AGG
(TGG)	 AG	31446-31634	GT	AGG
(GGA)	 AG	31942-32034	GT	CGG
(TGG)	 AG	32120-32206	GT	AGG
(GAG)	 AG	32347-32525	GT	AAG
(ACC)	 AG	32792-32872	GT	AGG
(TCA)	 AG	33022-33118	AT	GAA
-recovered pasa_asmbl_6697.p1, terminal, 33022, 33118
-recovered pasa_asmbl_6697.p1, internal, 28163, 28336
-recovered pasa_asmbl_6697.p1, internal, 28462, 28524
-recovered pasa_asmbl_6697.p1, internal, 28658, 28883
-recovered pasa_asmbl_6697.p1, internal, 29365, 29502
-recovered pasa_asmbl_6697.p1, internal, 30196, 30297
-recovered pasa_asmbl_6697.p1, internal, 30693, 30764
-recovered pasa_asmbl_6697.p1, internal, 31446, 31634
-recovered pasa_asmbl_6697.p1, internal, 31942, 32034
-recovered pasa_asmbl_6697.p1, internal, 32120, 32206
-recovered pasa_asmbl_6697.p1, internal, 32347, 32525
-recovered pasa_asmbl_6697.p1, internal, 32792, 32872
Valid prediction for GlimmerHMM_glimmerT_27191-T1
Valid prediction for pasa_asmbl_6699.p1
Valid prediction for GlimmerHMM_glimmerT_27212-T1
Valid prediction for snap_scaffold_11-snap.1441-T1
Valid prediction for GlimmerHMM_glimmerT_27214-T1
Valid prediction for Augustus_model.g17998.t1
Valid prediction for pasa_asmbl_6694.p1
Valid prediction for snap_scaffold_11-snap.1450-T1
Valid prediction for Augustus_model.g17995.t1
Valid prediction for GlimmerHMM_glimmerT_27198-T1
Valid prediction for snap_scaffold_11-snap.1455-T1
Valid prediction for snap_scaffold_11-snap.1434-T1
Valid prediction for GlimmerHMM_glimmerT_27209-T1
Valid prediction for CodingQuarry_transcript_8092-T1
Valid prediction for Augustus_model.g17994.t1
Valid prediction for snap_scaffold_11-snap.1438-T1
Valid prediction for snap_scaffold_11-snap.1456-T1
Valid prediction for CodingQuarry_transcript_8091-T1
Valid prediction for snap_scaffold_11-snap.1458-T1
Valid prediction for GlimmerHMM_glimmerT_27217-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 46611, rend_intergenic: 42722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112819, rend_intergenic: 109118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124994, rend_intergenic: 123626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133853, rend_intergenic: 133170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144555, rend_intergenic: 134003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159201, rend_intergenic: 152338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201422, rend_intergenic: 199093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204813, rend_intergenic: 202047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206364, rend_intergenic: 205483  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211551, rend_intergenic: 207589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 231557
-exon list size: 401


building trellis

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32.3    
32.5    
32.8    
33.0    
33.3    
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33.7    
34.0    
34.2    
34.5    
34.7    
35.0    
35.2    
35.5    
35.7    
36.0    
36.2    
36.5    
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37.0    
37.2    
37.5    
37.7    
38.0    
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38.5    
38.7    
39.0    
39.2    
39.5    
39.7    
40.0    
40.2    
40.4    
40.7    
40.9    
41.2    
41.4    
41.7    
41.9    
42.2    
42.4    
42.7    
42.9    
43.2    
43.4    
43.7    
43.9    
44.2    
44.4    
44.7    
44.9    
45.2    
45.4    
45.7    
45.9    
46.2    
46.4    
46.7    
46.9    
47.1    
47.4    
47.6    
47.9    
48.1    
48.4    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
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50.6    
50.9    
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51.6    
51.9    
52.1    
52.4    
52.6    
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53.6    
53.8    
54.1    
54.3    
54.6    
54.8    
55.1    
55.3    
55.6    
55.8    
56.1    
56.3    
56.6    
56.8    
57.1    
57.3    
57.6    
57.8    
58.1    
58.3    
58.6    
58.8    
59.1    
59.3    
59.6    
59.8    
60.0    
60.3    
60.5    
60.8    
61.0    
61.3    
61.5    
61.8    
62.0    
62.3    
62.5    
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63.0    
63.3    
63.5    
63.8    
64.0    
64.3    
64.5    
64.8    
65.0    
65.3    
65.5    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.5    
67.7    
68.0    
68.2    
68.5    
68.7    
69.0    
69.2    
69.5    
69.7    
70.0    
70.2    
70.5    
70.7    
71.0    
71.2    
71.5    
71.7    
72.0    
72.2    
72.5    
72.7    
73.0    
73.2    
73.4    
73.7    
73.9    
74.2    
74.4    
74.7    
74.9    
75.2    
75.4    
75.7    
75.9    
76.2    
76.4    
76.7    
76.9    
77.2    
77.4    
77.7    
77.9    
78.2    
78.4    
78.7    
78.9    
79.2    
79.4    
79.7    
79.9    
80.1    
80.4    
80.6    
80.9    
81.1    
81.4    
81.6    
81.9    
82.1    
82.4    
82.6    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.4    
84.6    
84.9    
85.1    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
86.8    
87.1    
87.3    
87.6    
87.8    
88.1    
88.3    
88.6    
88.8    
89.1    
89.3    
89.6    
89.8    
90.1    
90.3    
90.6    
90.8    
91.1    
91.3    
91.6    
91.8    
92.1    
92.3    
92.6    
92.8    
93.1    
93.3    
93.5    
93.8    
94.0    
94.3    
94.5    
94.8    
95.0    
95.3    
95.5    
95.8    
96.0    
96.3    
96.5    
96.8    
97.0    
97.3    
97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 46611, rend_intergenic: 42722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112819, rend_intergenic: 109118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124994, rend_intergenic: 123626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133853, rend_intergenic: 133170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144555, rend_intergenic: 134003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159201, rend_intergenic: 152338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201422, rend_intergenic: 199093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204813, rend_intergenic: 202047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206364, rend_intergenic: 205483  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211551, rend_intergenic: 207589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 27 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 220493 - 231557
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support