-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_7997348-8171145

-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_24-snap.1674-T1
Valid prediction for Augustus_model.g35257.t1
Valid prediction for snap_scaffold_24-snap.1682-T1
Valid prediction for Augustus_model.g35265.t1
Valid prediction for snap_scaffold_24-snap.1684-T1
Valid prediction for snap_scaffold_24-snap.1670-T1
Valid prediction for GlimmerHMM_glimmerT_52922-T1
Couldn't classify 124453, 124454
Sorry, prediction pasa_asmbl_32411.p1 fails validation.
(ATG)	 CC	121454-121777	GT	ATG
(GTA)	 AG	122611-122707	GT	AGG
(ACC)	 AG	123865-124018	GT	CTG
(GCT)	 AG	124149-124273	GT	ATG
(GAA)	 AG	124453-124454	AC	GAA
-recovered pasa_asmbl_32411.p1, initial, 121454, 121777
-recovered pasa_asmbl_32411.p1, internal, 122611, 122707
-recovered pasa_asmbl_32411.p1, internal, 123865, 124018
-recovered pasa_asmbl_32411.p1, internal, 124149, 124273
Valid prediction for Augustus_model.g35260.t1
Valid prediction for Augustus_model.g35266.t1
Valid prediction for snap_scaffold_24-snap.1691-T1
Valid prediction for snap_scaffold_24-snap.1686-T1
Valid prediction for GlimmerHMM_glimmerT_52945-T1
Valid prediction for Augustus_model.g35264.t1
Valid prediction for GlimmerHMM_glimmerT_52935-T1
Valid prediction for GlimmerHMM_glimmerT_52928-T1
Valid prediction for snap_scaffold_24-snap.1694-T1
Valid prediction for Augustus_model.g35251.t1
Couldn't classify 129845, 130054
Sorry, prediction pasa_asmbl_32662.p1 fails validation.
(TCC)	 AC	129845-130054	GT	AGG
(GCC)	 AG	130165-130365	GT	AGG
(GCA)	 AG	130498-130586	GT	CGG
(AGA)	 AG	130681-130738	GA	AGG
-recovered pasa_asmbl_32662.p1, terminal, 130681, 130738
-recovered pasa_asmbl_32662.p1, internal, 130165, 130365
-recovered pasa_asmbl_32662.p1, internal, 130498, 130586
Valid prediction for snap_scaffold_24-snap.1672-T1
Valid prediction for snap_scaffold_24-snap.1680-T1
Valid prediction for GlimmerHMM_glimmerT_52937-T1
Valid prediction for snap_scaffold_24-snap.1683-T1
Couldn't classify 124453, 124454
Sorry, prediction CodingQuarry_transcript_37374-T1 fails validation.
(ATG)	 CC	121454-121777	GT	ATG
(GTA)	 AG	122611-122707	GT	AGG
(ACC)	 AG	123865-124018	GT	CTG
(GCT)	 AG	124149-124273	GT	ATG
(GAA)	 AG	124453-124454	AC	GAA
-recovered CodingQuarry_transcript_37374-T1, initial, 121454, 121777
-recovered CodingQuarry_transcript_37374-T1, internal, 122611, 122707
-recovered CodingQuarry_transcript_37374-T1, internal, 123865, 124018
-recovered CodingQuarry_transcript_37374-T1, internal, 124149, 124273
Valid prediction for snap_scaffold_24-snap.1653-T1
Couldn't classify 114937, 115302
Sorry, prediction pasa_asmbl_32408.p2 fails validation.
(ACC)	 AC	114937-115302	AC	GAA
Valid prediction for Augustus_model.g35262.t1
Valid prediction for Augustus_model.g35255.t1
Valid prediction for GlimmerHMM_glimmerT_52929-T1
Valid prediction for GlimmerHMM_glimmerT_52939-T1
Valid prediction for GlimmerHMM_glimmerT_52940-T1
Valid prediction for snap_scaffold_24-snap.1687-T1
Valid prediction for GlimmerHMM_glimmerT_52944-T1
Valid prediction for snap_scaffold_24-snap.1685-T1
Valid prediction for snap_scaffold_24-snap.1657-T1
Valid prediction for snap_scaffold_24-snap.1666-T1
Couldn't classify 113177, 113238
Couldn't classify 114775, 114846
Sorry, prediction pasa_asmbl_32604.p1 fails validation.
(CGA)	 TC	113177-113238	GT	CTG
(GCT)	 AG	113706-113832	GT	TGG
(GTC)	 AG	114172-114324	GT	AGG
(GCT)	 AG	114775-114846	AT	ACA
-recovered pasa_asmbl_32604.p1, internal, 113706, 113832
-recovered pasa_asmbl_32604.p1, internal, 114172, 114324
Valid prediction for Augustus_model.g35252.t1
Valid prediction for snap_scaffold_24-snap.1663-T1
Couldn't classify 128231, 128309
Couldn't classify 129606, 129796
Sorry, prediction pasa_asmbl_32415.p1 fails validation.
(GGG)	 GG	128231-128309	GT	ACG
(GGG)	 AG	128401-128465	GT	TGG
(GTC)	 AG	128573-128658	GT	GGG
(AAT)	 AG	128923-128983	GT	TGG
(GAG)	 AG	129141-129216	GT	CGG
(GTT)	 AG	129429-129479	GT	CAG
(GCA)	 AG	129606-129796	GT	AAG
-recovered pasa_asmbl_32415.p1, internal, 128401, 128465
-recovered pasa_asmbl_32415.p1, internal, 128573, 128658
-recovered pasa_asmbl_32415.p1, internal, 128923, 128983
-recovered pasa_asmbl_32415.p1, internal, 129141, 129216
-recovered pasa_asmbl_32415.p1, internal, 129429, 129479
-recovered pasa_asmbl_32415.p1, internal, 129606, 129796
Valid prediction for snap_scaffold_24-snap.1668-T1
Valid prediction for GlimmerHMM_glimmerT_52943-T1
Valid prediction for snap_scaffold_24-snap.1690-T1
Valid prediction for snap_scaffold_24-snap.1692-T1
Valid prediction for snap_scaffold_24-snap.1677-T1
Valid prediction for GlimmerHMM_glimmerT_52936-T1
Valid prediction for snap_scaffold_24-snap.1655-T1
Valid prediction for GlimmerHMM_glimmerT_52932-T1
Valid prediction for snap_scaffold_24-snap.1660-T1
Valid prediction for GlimmerHMM_glimmerT_52921-T1
Valid prediction for snap_scaffold_24-snap.1662-T1
Valid prediction for GlimmerHMM_glimmerT_52925-T1
Valid prediction for snap_scaffold_24-snap.1678-T1
Valid prediction for GlimmerHMM_glimmerT_52942-T1
Valid prediction for snap_scaffold_24-snap.1695-T1
Valid prediction for GlimmerHMM_glimmerT_52931-T1
Valid prediction for snap_scaffold_24-snap.1676-T1
Valid prediction for Augustus_model.g35263.t1
Valid prediction for snap_scaffold_24-snap.1693-T1
Valid prediction for GlimmerHMM_glimmerT_52941-T1
Valid prediction for snap_scaffold_24-snap.1654-T1
Valid prediction for snap_scaffold_24-snap.1673-T1
Valid prediction for Augustus_model.g35259.t1
Valid prediction for GlimmerHMM_glimmerT_52934-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_52924-T1
Valid prediction for snap_scaffold_24-snap.1667-T1
Valid prediction for snap_scaffold_24-snap.1664-T1
Valid prediction for GlimmerHMM_glimmerT_52946-T1
Valid prediction for Augustus_model.g35254.t1
Valid prediction for snap_scaffold_24-snap.1679-T1
Valid prediction for GlimmerHMM_glimmerT_52938-T1
Valid prediction for snap_scaffold_24-snap.1661-T1
Valid prediction for Augustus_model.g35258.t1
Valid prediction for GlimmerHMM_glimmerT_52926-T1
Valid prediction for snap_scaffold_24-snap.1659-T1
Valid prediction for Augustus_model.g35267.t1
Valid prediction for snap_scaffold_24-snap.1669-T1
Valid prediction for Augustus_model.g35256.t1
Valid prediction for GlimmerHMM_glimmerT_52927-T1
Valid prediction for snap_scaffold_24-snap.1675-T1
Valid prediction for snap_scaffold_24-snap.1696-T1
Valid prediction for HiQ_model.g35261.t1
Valid prediction for Augustus_model.g35253.t1
Valid prediction for snap_scaffold_24-snap.1681-T1
Valid prediction for snap_scaffold_24-snap.1658-T1
Valid prediction for snap_scaffold_24-snap.1656-T1
Valid prediction for snap_scaffold_24-snap.1671-T1
Valid prediction for GlimmerHMM_glimmerT_52933-T1
Valid prediction for snap_scaffold_24-snap.1689-T1
Valid prediction for GlimmerHMM_glimmerT_52930-T1
Valid prediction for snap_scaffold_24-snap.1665-T1
Valid prediction for snap_scaffold_24-snap.1688-T1
Valid prediction for GlimmerHMM_glimmerT_52923-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 28037, rend_intergenic: 23710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34796, rend_intergenic: 31828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46940, rend_intergenic: 42828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52709, rend_intergenic: 48671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56615, rend_intergenic: 56536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63159, rend_intergenic: 56683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97471, rend_intergenic: 86935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111220, rend_intergenic: 108582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136952, rend_intergenic: 134352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140904, rend_intergenic: 138095  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 173798
-exon list size: 299


building trellis

0.3    
0.7    
1.0    
1.3    
1.7    
2.0    
2.3    
2.7    
3.0    
3.3    
3.7    
4.0    
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4.7    
5.0    
5.3    
5.6    
6.0    
6.3    
6.6    
7.0    
7.3    
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8.0    
8.3    
8.6    
9.0    
9.3    
9.6    
10.0    
10.3    
10.6    
11.0    
11.3    
11.6    
12.0    
12.3    
12.6    
13.0    
13.3    
13.6    
14.0    
14.3    
14.6    
15.0    
15.3    
15.6    
15.9    
16.3    
16.6    
16.9    
17.3    
17.6    
17.9    
18.3    
18.6    
18.9    
19.3    
19.6    
19.9    
20.3    
20.6    
20.9    
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21.9    
22.3    
22.6    
22.9    
23.3    
23.6    
23.9    
24.3    
24.6    
24.9    
25.2    
25.6    
25.9    
26.2    
26.6    
26.9    
27.2    
27.6    
27.9    
28.2    
28.6    
28.9    
29.2    
29.6    
29.9    
30.2    
30.6    
30.9    
31.2    
31.6    
31.9    
32.2    
32.6    
32.9    
33.2    
33.6    
33.9    
34.2    
34.6    
34.9    
35.2    
35.5    
35.9    
36.2    
36.5    
36.9    
37.2    
37.5    
37.9    
38.2    
38.5    
38.9    
39.2    
39.5    
39.9    
40.2    
40.5    
40.9    
41.2    
41.5    
41.9    
42.2    
42.5    
42.9    
43.2    
43.5    
43.9    
44.2    
44.5    
44.9    
45.2    
45.5    
45.8    
46.2    
46.5    
46.8    
47.2    
47.5    
47.8    
48.2    
48.5    
48.8    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.2    
51.5    
51.8    
52.2    
52.5    
52.8    
53.2    
53.5    
53.8    
54.2    
54.5    
54.8    
55.1    
55.5    
55.8    
56.1    
56.5    
56.8    
57.1    
57.5    
57.8    
58.1    
58.5    
58.8    
59.1    
59.5    
59.8    
60.1    
60.5    
60.8    
61.1    
61.5    
61.8    
62.1    
62.5    
62.8    
63.1    
63.5    
63.8    
64.1    
64.5    
64.8    
65.1    
65.4    
65.8    
66.1    
66.4    
66.8    
67.1    
67.4    
67.8    
68.1    
68.4    
68.8    
69.1    
69.4    
69.8    
70.1    
70.4    
70.8    
71.1    
71.4    
71.8    
72.1    
72.4    
72.8    
73.1    
73.4    
73.8    
74.1    
74.4    
74.8    
75.1    
75.4    
75.7    
76.1    
76.4    
76.7    
77.1    
77.4    
77.7    
78.1    
78.4    
78.7    
79.1    
79.4    
79.7    
80.1    
80.4    
80.7    
81.1    
81.4    
81.7    
82.1    
82.4    
82.7    
83.1    
83.4    
83.7    
84.1    
84.4    
84.7    
85.0    
85.4    
85.7    
86.0    
86.4    
86.7    
87.0    
87.4    
87.7    
88.0    
88.4    
88.7    
89.0    
89.4    
89.7    
90.0    
90.4    
90.7    
91.0    
91.4    
91.7    
92.0    
92.4    
92.7    
93.0    
93.4    
93.7    
94.0    
94.4    
94.7    
95.0    
95.3    
95.7    
96.0    
96.3    
96.7    
97.0    
97.3    
97.7    
98.0    
98.3    
98.7    
99.0    
99.3    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 28037, rend_intergenic: 23710  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34796, rend_intergenic: 31828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46940, rend_intergenic: 42828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52709, rend_intergenic: 48671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56615, rend_intergenic: 56536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63159, rend_intergenic: 56683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97471, rend_intergenic: 86935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111220, rend_intergenic: 108582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136952, rend_intergenic: 134352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140904, rend_intergenic: 138095  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 10782
-exon list size: 6


building trellis

12.5    
25.0    
37.5    
50.0    
62.5    
75.0    
87.5    
-found 2 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support