-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_5422258-5588467

-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.g28212.t1
Valid prediction for snap_scaffold_18-snap.1138-T1
Valid prediction for HiQ_model.g28197.t1
Valid prediction for snap_scaffold_18-snap.1155-T1
Valid prediction for GlimmerHMM_glimmerT_42331-T1
Valid prediction for snap_scaffold_18-snap.1142-T1
Valid prediction for GlimmerHMM_glimmerT_42345-T1
Valid prediction for GlimmerHMM_glimmerT_42336-T1
Valid prediction for GlimmerHMM_glimmerT_42350-T1
Valid prediction for GlimmerHMM_glimmerT_42341-T1
Valid prediction for snap_scaffold_18-snap.1140-T1
Valid prediction for GlimmerHMM_glimmerT_42334-T1
Valid prediction for snap_scaffold_18-snap.1147-T1
Valid prediction for GlimmerHMM_glimmerT_42339-T1
Valid prediction for snap_scaffold_18-snap.1154-T1
Valid prediction for Augustus_model.g28198.t1
Valid prediction for Augustus_model.g28203.t1
Couldn't classify 27646, 27665
Sorry, prediction pasa_asmbl_20584.p1 fails validation.
(TTT)	 AG	27646-27665	GT	TAG
(CAT)	 AG	27753-27826	GT	AGG
(GGC)	 AG	27999-28076	GT	AGG
(GGA)	 AG	28531-28659	GT	CCG
(GAG)	 AG	29110-29213	GT	TGG
(GTG)	 AG	30597-30794	GC	GAG
-recovered pasa_asmbl_20584.p1, terminal, 27999, 28076
-recovered pasa_asmbl_20584.p1, terminal, 30597, 30794
-recovered pasa_asmbl_20584.p1, internal, 27646, 27665
-recovered pasa_asmbl_20584.p1, internal, 27753, 27826
-recovered pasa_asmbl_20584.p1, internal, 27999, 28076
-recovered pasa_asmbl_20584.p1, internal, 28531, 28659
-recovered pasa_asmbl_20584.p1, internal, 29110, 29213
-recovered pasa_asmbl_20584.p1, internal, 30597, 30794
Valid prediction for snap_scaffold_18-snap.1171-T1
Valid prediction for GlimmerHMM_glimmerT_42330-T1
Valid prediction for GlimmerHMM_glimmerT_42351-T1
Valid prediction for snap_scaffold_18-snap.1159-T1
Valid prediction for Augustus_model.g28209.t1
Valid prediction for snap_scaffold_18-snap.1152-T1
Valid prediction for GlimmerHMM_glimmerT_42329-T1
Valid prediction for Augustus_model.g28213.t1
Valid prediction for GlimmerHMM_glimmerT_42347-T1
Valid prediction for snap_scaffold_18-snap.1137-T1
Valid prediction for GlimmerHMM_glimmerT_42348-T1
Valid prediction for HiQ_model.g28210.t1
Valid prediction for GlimmerHMM_glimmerT_42355-T1
Valid prediction for CodingQuarry_transcript_23766-T1
Valid prediction for snap_scaffold_18-snap.1161-T1
Valid prediction for Augustus_model.g28220.t1
Valid prediction for GlimmerHMM_glimmerT_42335-T1
Valid prediction for GlimmerHMM_glimmerT_42333-T1
Valid prediction for GlimmerHMM_glimmerT_42353-T1
Valid prediction for snap_scaffold_18-snap.1153-T1
Valid prediction for snap_scaffold_18-snap.1156-T1
Valid prediction for GlimmerHMM_glimmerT_42352-T1
Valid prediction for GlimmerHMM_glimmerT_42343-T1
Valid prediction for CodingQuarry_transcript_23763-T1
Valid prediction for snap_scaffold_18-snap.1149-T1
Valid prediction for snap_scaffold_18-snap.1157-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g28195.t1
Valid prediction for Augustus_model.g28205.t1
Valid prediction for GlimmerHMM_glimmerT_42359-T1
Valid prediction for pasa_asmbl_20585.p1
Valid prediction for Augustus_model.g28202.t1
Valid prediction for snap_scaffold_18-snap.1145-T1
Valid prediction for snap_scaffold_18-snap.1150-T1
Valid prediction for snap_scaffold_18-snap.1169-T1
Valid prediction for Augustus_model.g28207.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_18-snap.1162-T1
Valid prediction for snap_scaffold_18-snap.1141-T1
Valid prediction for GlimmerHMM_glimmerT_42340-T1
Valid prediction for snap_scaffold_18-snap.1170-T1
Valid prediction for snap_scaffold_18-snap.1136-T1
Valid prediction for snap_scaffold_18-snap.1151-T1
Couldn't classify 11605, 11919
Sorry, prediction pasa_asmbl_19859.p1 fails validation.
(GAG)	 AC	11605-11919	AT	GCA
Valid prediction for Augustus_model.g28204.t1
Valid prediction for GlimmerHMM_glimmerT_42357-T1
Valid prediction for Augustus_model.g28218.t1
Valid prediction for snap_scaffold_18-snap.1144-T1
Valid prediction for CodingQuarry_transcript_23765-T1
Valid prediction for CodingQuarry_transcript_23768-T1
Valid prediction for GlimmerHMM_glimmerT_42358-T1
Valid prediction for GlimmerHMM_glimmerT_42361-T1
Couldn't classify 25045, 25143
Sorry, prediction pasa_asmbl_19855.p1 fails validation.
(ATG)	 AG	23516-23636	GT	TGG
(CCT)	 AG	23893-23976	GT	AAG
(GAG)	 AG	24071-24169	GT	AGG
(CCA)	 AG	24289-24465	GT	AGG
(ACA)	 AG	24813-24850	GT	AAG
(CTG)	 AG	25045-25143	GC	GGG
-recovered pasa_asmbl_19855.p1, initial, 23516, 23636
-recovered pasa_asmbl_19855.p1, internal, 23516, 23636
-recovered pasa_asmbl_19855.p1, internal, 23893, 23976
-recovered pasa_asmbl_19855.p1, internal, 24071, 24169
-recovered pasa_asmbl_19855.p1, internal, 24289, 24465
-recovered pasa_asmbl_19855.p1, internal, 24813, 24850
-recovered pasa_asmbl_19855.p1, internal, 25045, 25143
Valid prediction for Augustus_model.g28211.t1
Valid prediction for GlimmerHMM_glimmerT_42349-T1
Valid prediction for snap_scaffold_18-snap.1148-T1
Couldn't classify 5610, 5988
Sorry, prediction pasa_asmbl_19860.p1 fails validation.
(CAC)	 GT	5610-5988	GT	TGG
(GCT)	 AG	8404-8552	GT	AGG
(ATC)	 AG	9892-9912	AT	GAA
-recovered pasa_asmbl_19860.p1, terminal, 9892, 9912
-recovered pasa_asmbl_19860.p1, internal, 8404, 8552
Valid prediction for GlimmerHMM_glimmerT_42338-T1
Valid prediction for snap_scaffold_18-snap.1167-T1
Valid prediction for Augustus_model.g28201.t1
Valid prediction for snap_scaffold_18-snap.1143-T1
Valid prediction for Augustus_model.g28216.t1
Valid prediction for HiQ_model.g28221.t1
Valid prediction for Augustus_model.g28208.t1
Valid prediction for snap_scaffold_18-snap.1146-T1
Valid prediction for GlimmerHMM_glimmerT_42337-T1
Valid prediction for GlimmerHMM_glimmerT_42354-T1
Valid prediction for snap_scaffold_18-snap.1172-T1
Valid prediction for HiQ_model.g28222.t1
Valid prediction for snap_scaffold_18-snap.1139-T1
Valid prediction for CodingQuarry_transcript_23764-T1
Valid prediction for GlimmerHMM_glimmerT_42346-T1
Valid prediction for HiQ_model.g28215.t1
Valid prediction for snap_scaffold_18-snap.1166-T1
Couldn't classify 46445, 46570
Sorry, prediction pasa_asmbl_19844.p1 fails validation.
(TAT)	 AC	46445-46570	GT	AGG
(CTG)	 AG	46888-46965	GT	AGG
(CAA)	 AG	47089-47190	GT	AGG
(GTG)	 AG	47578-47718	GT	GCG
(GTG)	 AG	47898-48086	GT	GGG
(GTG)	 AG	49093-49252	GT	AGG
(ACC)	 AG	49471-49626	GT	AGG
(ACA)	 AG	50304-50344	CA	AGC
-recovered pasa_asmbl_19844.p1, terminal, 50304, 50344
-recovered pasa_asmbl_19844.p1, internal, 46888, 46965
-recovered pasa_asmbl_19844.p1, internal, 47089, 47190
-recovered pasa_asmbl_19844.p1, internal, 47578, 47718
-recovered pasa_asmbl_19844.p1, internal, 47898, 48086
-recovered pasa_asmbl_19844.p1, internal, 49093, 49252
-recovered pasa_asmbl_19844.p1, internal, 49471, 49626
Couldn't classify 12241, 12795
Sorry, prediction pasa_asmbl_19858.p1 fails validation.
(ACT)	 GG	12241-12795	AT	AGA
Valid prediction for CodingQuarry_transcript_23767-T1
Valid prediction for snap_scaffold_18-snap.1160-T1
Valid prediction for snap_scaffold_18-snap.1165-T1
Valid prediction for Augustus_model.g28206.t1
Valid prediction for snap_scaffold_18-snap.1168-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g28217.t1
Valid prediction for Augustus_model.g28200.t1
Valid prediction for snap_scaffold_18-snap.1158-T1
Couldn't classify 52757, 53056
Sorry, prediction pasa_asmbl_19841.p1 fails validation.
(ATG)	 TA	52757-53056	AC	ACA
Valid prediction for pasa_asmbl_19853.p1
Valid prediction for Augustus_model.g28219.t1
Valid prediction for GlimmerHMM_glimmerT_42342-T1
Valid prediction for GlimmerHMM_glimmerT_42344-T1
Valid prediction for snap_scaffold_18-snap.1164-T1
Valid prediction for GlimmerHMM_glimmerT_42356-T1
Valid prediction for Augustus_model.g28214.t1
Valid prediction for GlimmerHMM_glimmerT_42332-T1
Valid prediction for Augustus_model.g28194.t1
Valid prediction for Augustus_model.g28196.t1
Valid prediction for snap_scaffold_18-snap.1163-T1
Valid prediction for GlimmerHMM_glimmerT_42360-T1
Valid prediction for snap_scaffold_18-snap.1135-T1
Valid prediction for snap_scaffold_18-snap.1134-T1
Valid prediction for pasa_asmbl_19863.p1
Valid prediction for Augustus_model.g28199.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13387, rend_intergenic: 10066  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18752, rend_intergenic: 14566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27107, rend_intergenic: 25742  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45829, rend_intergenic: 36641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54430, rend_intergenic: 52787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61206, rend_intergenic: 56968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70257, rend_intergenic: 69254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131392, rend_intergenic: 128927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160367, rend_intergenic: 157720  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 166210
-exon list size: 391


building trellis

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5.9    
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9.2    
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10.2    
10.4    
10.7    
10.9    
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11.5    
11.7    
12.0    
12.2    
12.5    
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14.2    
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15.0    
15.3    
15.5    
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16.0    
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16.5    
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17.0    
17.3    
17.6    
17.8    
18.1    
18.3    
18.6    
18.8    
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19.3    
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20.1    
20.4    
20.6    
20.9    
21.1    
21.4    
21.6    
21.9    
22.1    
22.4    
22.6    
22.9    
23.2    
23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
26.0    
26.2    
26.5    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.2    
28.5    
28.8    
29.0    
29.3    
29.5    
29.8    
30.0    
30.3    
30.5    
30.8    
31.0    
31.3    
31.6    
31.8    
32.1    
32.3    
32.6    
32.8    
33.1    
33.3    
33.6    
33.8    
34.1    
34.4    
34.6    
34.9    
35.1    
35.4    
35.6    
35.9    
36.1    
36.4    
36.6    
36.9    
37.2    
37.4    
37.7    
37.9    
38.2    
38.4    
38.7    
38.9    
39.2    
39.4    
39.7    
39.9    
40.2    
40.5    
40.7    
41.0    
41.2    
41.5    
41.7    
42.0    
42.2    
42.5    
42.7    
43.0    
43.3    
43.5    
43.8    
44.0    
44.3    
44.5    
44.8    
45.0    
45.3    
45.5    
45.8    
46.1    
46.3    
46.6    
46.8    
47.1    
47.3    
47.6    
47.8    
48.1    
48.3    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.1    
51.4    
51.7    
51.9    
52.2    
52.4    
52.7    
52.9    
53.2    
53.4    
53.7    
53.9    
54.2    
54.5    
54.7    
55.0    
55.2    
55.5    
55.7    
56.0    
56.2    
56.5    
56.7    
57.0    
57.3    
57.5    
57.8    
58.0    
58.3    
58.5    
58.8    
59.0    
59.3    
59.5    
59.8    
60.1    
60.3    
60.6    
60.8    
61.1    
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61.6    
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63.1    
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65.4    
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66.9    
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68.2    
68.4    
68.7    
69.0    
69.2    
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70.0    
70.2    
70.5    
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71.0    
71.2    
71.5    
71.8    
72.0    
72.3    
72.5    
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73.0    
73.3    
73.5    
73.8    
74.0    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.1    
77.4    
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78.1    
78.4    
78.6    
78.9    
79.1    
79.4    
79.6    
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80.2    
80.4    
80.7    
80.9    
81.2    
81.4    
81.7    
81.9    
82.2    
82.4    
82.7    
83.0    
83.2    
83.5    
83.7    
84.0    
84.2    
84.5    
84.7    
85.0    
85.2    
85.5    
85.8    
86.0    
86.3    
86.5    
86.8    
87.0    
87.3    
87.5    
87.8    
88.0    
88.3    
88.5    
88.8    
89.1    
89.3    
89.6    
89.8    
90.1    
90.3    
90.6    
90.8    
91.1    
91.3    
91.6    
91.9    
92.1    
92.4    
92.6    
92.9    
93.1    
93.4    
93.6    
93.9    
94.1    
94.4    
94.7    
94.9    
95.2    
95.4    
95.7    
95.9    
96.2    
96.4    
96.7    
96.9    
97.2    
97.5    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 13387, rend_intergenic: 10066  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18752, rend_intergenic: 14566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27107, rend_intergenic: 25742  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45829, rend_intergenic: 36641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54430, rend_intergenic: 52787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61206, rend_intergenic: 56968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70257, rend_intergenic: 69254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131392, rend_intergenic: 128927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160367, rend_intergenic: 157720  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 29 predictions persist after filtering for low support