-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_10578862-10802086

-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.g32432.t1
Valid prediction for GlimmerHMM_glimmerT_48540-T1
Valid prediction for snap_scaffold_21-snap.2319-T1
Valid prediction for snap_scaffold_21-snap.2317-T1
Valid prediction for snap_scaffold_21-snap.2333-T1
Valid prediction for GlimmerHMM_glimmerT_48547-T1
Valid prediction for snap_scaffold_21-snap.2341-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_21-snap.2305-T1
Valid prediction for snap_scaffold_21-snap.2321-T1
Valid prediction for snap_scaffold_21-snap.2329-T1
Valid prediction for Augustus_model.g32434.t1
Valid prediction for snap_scaffold_21-snap.2308-T1
Valid prediction for snap_scaffold_21-snap.2314-T1
Valid prediction for snap_scaffold_21-snap.2327-T1
Valid prediction for GlimmerHMM_glimmerT_48543-T1
Valid prediction for GlimmerHMM_glimmerT_48541-T1
Valid prediction for Augustus_model.g32436.t1
Valid prediction for snap_scaffold_21-snap.2306-T1
Valid prediction for GlimmerHMM_glimmerT_48539-T1
Valid prediction for snap_scaffold_21-snap.2332-T1
Valid prediction for GlimmerHMM_glimmerT_48549-T1
Valid prediction for GlimmerHMM_glimmerT_48545-T1
Valid prediction for snap_scaffold_21-snap.2335-T1
Valid prediction for snap_scaffold_21-snap.2325-T1
Valid prediction for snap_scaffold_21-snap.2310-T1
Valid prediction for snap_scaffold_21-snap.2342-T1
Valid prediction for Augustus_model.g32439.t1
Valid prediction for GlimmerHMM_glimmerT_48553-T1
Valid prediction for snap_scaffold_21-snap.2338-T1
Valid prediction for Augustus_model.g32435.t1
Valid prediction for snap_scaffold_21-snap.2315-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_48552-T1
Valid prediction for HiQ_model.g32430.t1
Valid prediction for snap_scaffold_21-snap.2339-T1
Valid prediction for snap_scaffold_21-snap.2331-T1
Valid prediction for Augustus_model.g32437.t1
Valid prediction for snap_scaffold_21-snap.2328-T1
Couldn't classify 211193, 211274
Couldn't classify 211909, 211973
Sorry, prediction pasa_asmbl_28171.p1 fails validation.
(CCC)	 CT	211193-211274	GT	CGG
(GCG)	 AG	211571-211720	GT	TGG
(GTG)	 AG	211909-211973	GG	AGG
-recovered pasa_asmbl_28171.p1, internal, 211571, 211720
Valid prediction for snap_scaffold_21-snap.2336-T1
Valid prediction for GlimmerHMM_glimmerT_48544-T1
Couldn't classify 216026, 216087
Couldn't classify 216925, 216962
Sorry, prediction pasa_asmbl_28069.p1 fails validation.
(GAA)	 TC	216026-216087	GT	CAG
(GTG)	 AG	216281-216342	GT	AGG
(CTG)	 AG	216556-216711	GT	AGG
(ATG)	 AG	216925-216962	GA	GTG
add_exon() Sorry, pasa_asmbl_28069.p1 216556-216711-terminal-1 is invalid.
-recovered pasa_asmbl_28069.p1, terminal, 216556, 216711
-recovered pasa_asmbl_28069.p1, internal, 216281, 216342
-recovered pasa_asmbl_28069.p1, internal, 216556, 216711
Valid prediction for CodingQuarry_transcript_32729-T1
Valid prediction for GlimmerHMM_glimmerT_48556-T1
Valid prediction for snap_scaffold_21-snap.2322-T1
Valid prediction for GlimmerHMM_glimmerT_48548-T1
Valid prediction for Augustus_model.g32429.t1
Valid prediction for GlimmerHMM_glimmerT_48536-T1
Valid prediction for Augustus_model.g32442.t1
Valid prediction for Augustus_model.g32443.t1
Couldn't classify 220366, 220935
Sorry, prediction pasa_asmbl_28068.p1 fails validation.
(TGT)	 CG	220366-220935	CA	GAC
Valid prediction for snap_scaffold_21-snap.2316-T1
Valid prediction for GlimmerHMM_glimmerT_48554-T1
Valid prediction for Augustus_model.g32441.t1
Valid prediction for snap_scaffold_21-snap.2337-T1
Valid prediction for GlimmerHMM_glimmerT_48546-T1
Valid prediction for snap_scaffold_21-snap.2313-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g32431.t1
Valid prediction for CodingQuarry_transcript_32728-T1
Valid prediction for snap_scaffold_21-snap.2312-T1
Valid prediction for snap_scaffold_21-snap.2311-T1
Valid prediction for Augustus_model.g32433.t1
Valid prediction for snap_scaffold_21-snap.2323-T1
Valid prediction for GlimmerHMM_glimmerT_48550-T1
Valid prediction for snap_scaffold_21-snap.2318-T1
Valid prediction for snap_scaffold_21-snap.2324-T1
Valid prediction for Augustus_model.g32438.t1
Valid prediction for snap_scaffold_21-snap.2330-T1
Valid prediction for snap_scaffold_21-snap.2307-T1
Valid prediction for snap_scaffold_21-snap.2320-T1
Valid prediction for GlimmerHMM_glimmerT_48551-T1
Valid prediction for GlimmerHMM_glimmerT_48542-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g32440.t1
Valid prediction for snap_scaffold_21-snap.2304-T1
Sorry, intron length (7) is less than minimum required (10)
Couldn't classify 141317, 141468
Sorry, prediction pasa_asmbl_28073.p1 fails validation.
(GGC)	 CG	141317-141468	GT	GAG
(GTA)	 AG	142309-142681	GC	GAG
-recovered pasa_asmbl_28073.p1, terminal, 142309, 142681
-recovered pasa_asmbl_28073.p1, internal, 142309, 142681
Valid prediction for snap_scaffold_21-snap.2309-T1
Valid prediction for snap_scaffold_21-snap.2340-T1
Valid prediction for snap_scaffold_21-snap.2334-T1
Valid prediction for GlimmerHMM_glimmerT_48538-T1
Valid prediction for GlimmerHMM_glimmerT_48555-T1
Valid prediction for GlimmerHMM_glimmerT_48537-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_21-snap.2326-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16700, rend_intergenic: 1652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26209, rend_intergenic: 24954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31696, rend_intergenic: 27611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49477, rend_intergenic: 35219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52242, rend_intergenic: 49512  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58571, rend_intergenic: 56712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78254, rend_intergenic: 75064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89456, rend_intergenic: 84403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111103, rend_intergenic: 106844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114618, rend_intergenic: 112777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122351, rend_intergenic: 117097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130660, rend_intergenic: 126936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 223225
-exon list size: 372


building trellis

0.3    
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8.0    
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10.7    
11.0    
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11.5    
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12.0    
12.3    
12.6    
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13.1    
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15.0    
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15.5    
15.8    
16.0    
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16.6    
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17.1    
17.4    
17.6    
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18.4    
18.7    
19.0    
19.3    
19.5    
19.8    
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20.9    
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24.6    
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25.7    
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26.2    
26.5    
26.7    
27.0    
27.3    
27.5    
27.8    
28.1    
28.3    
28.6    
28.9    
29.1    
29.4    
29.7    
29.9    
30.2    
30.5    
30.7    
31.0    
31.3    
31.6    
31.8    
32.1    
32.4    
32.6    
32.9    
33.2    
33.4    
33.7    
34.0    
34.2    
34.5    
34.8    
35.0    
35.3    
35.6    
35.8    
36.1    
36.4    
36.6    
36.9    
37.2    
37.4    
37.7    
38.0    
38.2    
38.5    
38.8    
39.0    
39.3    
39.6    
39.8    
40.1    
40.4    
40.6    
40.9    
41.2    
41.4    
41.7    
42.0    
42.2    
42.5    
42.8    
43.0    
43.3    
43.6    
43.9    
44.1    
44.4    
44.7    
44.9    
45.2    
45.5    
45.7    
46.0    
46.3    
46.5    
46.8    
47.1    
47.3    
47.6    
47.9    
48.1    
48.4    
48.7    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.3    
51.6    
51.9    
52.1    
52.4    
52.7    
52.9    
53.2    
53.5    
53.7    
54.0    
54.3    
54.5    
54.8    
55.1    
55.3    
55.6    
55.9    
56.1    
56.4    
56.7    
57.0    
57.2    
57.5    
57.8    
58.0    
58.3    
58.6    
58.8    
59.1    
59.4    
59.6    
59.9    
60.2    
60.4    
60.7    
61.0    
61.2    
61.5    
61.8    
62.0    
62.3    
62.6    
62.8    
63.1    
63.4    
63.6    
63.9    
64.2    
64.4    
64.7    
65.0    
65.2    
65.5    
65.8    
66.0    
66.3    
66.6    
66.8    
67.1    
67.4    
67.6    
67.9    
68.2    
68.4    
68.7    
69.0    
69.3    
69.5    
69.8    
70.1    
70.3    
70.6    
70.9    
71.1    
71.4    
71.7    
71.9    
72.2    
72.5    
72.7    
73.0    
73.3    
73.5    
73.8    
74.1    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
75.9    
76.2    
76.5    
76.7    
77.0    
77.3    
77.5    
77.8    
78.1    
78.3    
78.6    
78.9    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.7    
81.0    
81.3    
81.6    
81.8    
82.1    
82.4    
82.6    
82.9    
83.2    
83.4    
83.7    
84.0    
84.2    
84.5    
84.8    
85.0    
85.3    
85.6    
85.8    
86.1    
86.4    
86.6    
86.9    
87.2    
87.4    
87.7    
88.0    
88.2    
88.5    
88.8    
89.0    
89.3    
89.6    
89.8    
90.1    
90.4    
90.6    
90.9    
91.2    
91.4    
91.7    
92.0    
92.2    
92.5    
92.8    
93.0    
93.3    
93.6    
93.9    
94.1    
94.4    
94.7    
94.9    
95.2    
95.5    
95.7    
96.0    
96.3    
96.5    
96.8    
97.1    
97.3    
97.6    
97.9    
98.1    
98.4    
98.7    
98.9    
99.2    
99.5    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 16700, rend_intergenic: 1652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26209, rend_intergenic: 24954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31696, rend_intergenic: 27611  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49477, rend_intergenic: 35219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52242, rend_intergenic: 49512  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58571, rend_intergenic: 56712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78254, rend_intergenic: 75064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89456, rend_intergenic: 84403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111103, rend_intergenic: 106844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114618, rend_intergenic: 112777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122351, rend_intergenic: 117097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130660, rend_intergenic: 126936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 212823 - 223225
-exon list size: 1


building trellis

33.3    
66.7    
-found 1 predictions from path traversal

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