-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_9272576-9439585

-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.g29611.t1
Valid prediction for snap_scaffold_19-snap.1833-T1
Valid prediction for Augustus_model.g29596.t1
Couldn't classify 113922, 114071
Sorry, prediction pasa_asmbl_21580.p1 fails validation.
(CTG)	 TC	113922-114071	GT	AGG
(GAT)	 AG	114211-114315	GT	AGG
(ATG)	 AG	114395-114636	GT	AGG
(ACC)	 AG	114791-114833	GT	AGG
(GTG)	 AG	114968-115129	AC	AAA
-recovered pasa_asmbl_21580.p1, initial, 114395, 114636
-recovered pasa_asmbl_21580.p1, terminal, 114968, 115129
-recovered pasa_asmbl_21580.p1, internal, 114211, 114315
-recovered pasa_asmbl_21580.p1, internal, 114395, 114636
-recovered pasa_asmbl_21580.p1, internal, 114791, 114833
Valid prediction for Augustus_model.g29593.t1
Couldn't classify 165484, 165685
Sorry, prediction pasa_asmbl_21590.p1 fails validation.
(CAG)	 CC	165484-165685	GT	AGG
(AGA)	 AG	165968-166071	GT	AGG
(ACT)	 AG	166171-166251	CC	GAC
-recovered pasa_asmbl_21590.p1, terminal, 166171, 166251
-recovered pasa_asmbl_21590.p1, internal, 165968, 166071
Valid prediction for snap_scaffold_19-snap.1832-T1
Valid prediction for GlimmerHMM_glimmerT_44612-T1
Valid prediction for snap_scaffold_19-snap.1827-T1
Valid prediction for snap_scaffold_19-snap.1835-T1
Valid prediction for snap_scaffold_19-snap.1811-T1
Valid prediction for Augustus_model.g29602.t1
Valid prediction for snap_scaffold_19-snap.1819-T1
Valid prediction for snap_scaffold_19-snap.1820-T1
Valid prediction for snap_scaffold_19-snap.1805-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_44604-T1
Valid prediction for Augustus_model.g29601.t1
Valid prediction for snap_scaffold_19-snap.1823-T1
Valid prediction for snap_scaffold_19-snap.1825-T1
Valid prediction for Augustus_model.g29609.t1
Valid prediction for snap_scaffold_19-snap.1829-T1
Valid prediction for GlimmerHMM_glimmerT_44620-T1
Valid prediction for Augustus_model.g29597.t1
Valid prediction for snap_scaffold_19-snap.1817-T1
Valid prediction for snap_scaffold_19-snap.1816-T1
Couldn't classify 145625, 145679
Couldn't classify 146457, 146494
Sorry, prediction pasa_asmbl_21583.p1 fails validation.
(AAG)	 TC	145625-145679	GT	TGG
(GCT)	 AG	145910-146019	GT	TGG
(GAG)	 AG	146169-146286	GT	AGG
(GGG)	 AG	146457-146494	CG	AGC
-recovered pasa_asmbl_21583.p1, internal, 145910, 146019
-recovered pasa_asmbl_21583.p1, internal, 146169, 146286
Couldn't classify 150723, 151034
Sorry, prediction pasa_asmbl_21587.p1 fails validation.
(ACC)	 TC	150723-151034	GG	GAG
Valid prediction for GlimmerHMM_glimmerT_44624-T1
Valid prediction for GlimmerHMM_glimmerT_44609-T1
Valid prediction for GlimmerHMM_glimmerT_44621-T1
Valid prediction for GlimmerHMM_glimmerT_44606-T1
Valid prediction for GlimmerHMM_glimmerT_44613-T1
Valid prediction for snap_scaffold_19-snap.1831-T1
Valid prediction for GlimmerHMM_glimmerT_44603-T1
Valid prediction for snap_scaffold_19-snap.1812-T1
Valid prediction for Augustus_model.g29606.t1
Valid prediction for snap_scaffold_19-snap.1808-T1
Valid prediction for GlimmerHMM_glimmerT_44601-T1
Valid prediction for snap_scaffold_19-snap.1809-T1
Valid prediction for snap_scaffold_19-snap.1803-T1
Valid prediction for Augustus_model.g29595.t1
Valid prediction for Augustus_model.g29603.t1
Valid prediction for GlimmerHMM_glimmerT_44617-T1
Valid prediction for GlimmerHMM_glimmerT_44626-T1
Valid prediction for GlimmerHMM_glimmerT_44605-T1
Valid prediction for GlimmerHMM_glimmerT_44623-T1
Valid prediction for snap_scaffold_19-snap.1824-T1
Valid prediction for snap_scaffold_19-snap.1806-T1
Valid prediction for Augustus_model.g29608.t1
Valid prediction for snap_scaffold_19-snap.1814-T1
Valid prediction for GlimmerHMM_glimmerT_44627-T1
Couldn't classify 147031, 147072
Couldn't classify 147816, 147823
Sorry, prediction pasa_asmbl_21584.p1 fails validation.
(CAG)	 AC	147031-147072	GT	TGG
(GTC)	 AG	147201-147310	GT	AAG
(GAC)	 AG	147443-147615	GT	GGG
(ACA)	 AG	147816-147823	AC	TGA
-recovered pasa_asmbl_21584.p1, terminal, 147201, 147310
-recovered pasa_asmbl_21584.p1, internal, 147201, 147310
-recovered pasa_asmbl_21584.p1, internal, 147443, 147615
Couldn't classify 159251, 159291
Sorry, prediction pasa_asmbl_21589.p1 fails validation.
(ATG)	 CT	158334-158519	GT	AGG
(GAG)	 AG	158626-158862	GT	TGG
(GTG)	 AG	158954-159092	GT	AGG
(AAC)	 AG	159251-159291	GA	GAG
-recovered pasa_asmbl_21589.p1, initial, 158334, 158519
-recovered pasa_asmbl_21589.p1, internal, 158626, 158862
-recovered pasa_asmbl_21589.p1, internal, 158954, 159092
Valid prediction for GlimmerHMM_glimmerT_44618-T1
Couldn't classify 147857, 147910
Sorry, prediction pasa_asmbl_21585.p1 fails validation.
(CTG)	 AC	147857-147910	GT	AGG
(GGC)	 AG	148040-148156	GT	GGG
(GAT)	 AG	148336-148497	GT	AGG
(GAT)	 AG	148693-148841	GT	AGG
(CTT)	 AG	148989-149124	GT	AGG
(ATG)	 AG	150249-150350	CC	GAC
-recovered pasa_asmbl_21585.p1, terminal, 150249, 150350
-recovered pasa_asmbl_21585.p1, internal, 148040, 148156
-recovered pasa_asmbl_21585.p1, internal, 148336, 148497
-recovered pasa_asmbl_21585.p1, internal, 148693, 148841
-recovered pasa_asmbl_21585.p1, internal, 148989, 149124

-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_19-snap.1834-T1
Valid prediction for snap_scaffold_19-snap.1813-T1
Valid prediction for GlimmerHMM_glimmerT_44611-T1
Valid prediction for snap_scaffold_19-snap.1821-T1
Valid prediction for snap_scaffold_19-snap.1828-T1
Valid prediction for snap_scaffold_19-snap.1801-T1
Valid prediction for snap_scaffold_19-snap.1804-T1
Valid prediction for GlimmerHMM_glimmerT_44608-T1
Valid prediction for snap_scaffold_19-snap.1830-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_44599-T1
Valid prediction for GlimmerHMM_glimmerT_44625-T1
Valid prediction for Augustus_model.g29591.t1
Valid prediction for GlimmerHMM_glimmerT_44607-T1
Valid prediction for Augustus_model.g29610.t1
Valid prediction for GlimmerHMM_glimmerT_44615-T1
Valid prediction for snap_scaffold_19-snap.1818-T1
Valid prediction for Augustus_model.g29592.t1
Valid prediction for Augustus_model.g29599.t1
Valid prediction for Augustus_model.g29594.t1
Valid prediction for GlimmerHMM_glimmerT_44619-T1
Valid prediction for GlimmerHMM_glimmerT_44600-T1
Valid prediction for GlimmerHMM_glimmerT_44616-T1
Valid prediction for snap_scaffold_19-snap.1826-T1
Valid prediction for GlimmerHMM_glimmerT_44610-T1
Valid prediction for HiQ_model.g29604.t1
Valid prediction for Augustus_model.g29607.t1
Valid prediction for snap_scaffold_19-snap.1822-T1
Valid prediction for snap_scaffold_19-snap.1810-T1
Valid prediction for Augustus_model.g29600.t1
Valid prediction for snap_scaffold_19-snap.1807-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g29598.t1
Valid prediction for snap_scaffold_19-snap.1815-T1
Valid prediction for snap_scaffold_19-snap.1802-T1
Valid prediction for GlimmerHMM_glimmerT_44614-T1
Valid prediction for Augustus_model.g29605.t1
Valid prediction for GlimmerHMM_glimmerT_44602-T1
Valid prediction for GlimmerHMM_glimmerT_44622-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 67745, rend_intergenic: 64747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76394, rend_intergenic: 72560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83282, rend_intergenic: 76599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95916, rend_intergenic: 91054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107568, rend_intergenic: 99492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129571, rend_intergenic: 124002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133247, rend_intergenic: 132376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134446, rend_intergenic: 133791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150350, rend_intergenic: 145306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164566, rend_intergenic: 158962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 167010
-exon list size: 465


building trellis

0.2    
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0.9    
1.1    
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2.8    
3.0    
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3.9    
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8.8    
9.0    
9.2    
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13.5    
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13.9    
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14.6    
14.8    
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17.6    
17.8    
18.0    
18.2    
18.4    
18.6    
18.8    
19.1    
19.3    
19.5    
19.7    
19.9    
20.1    
20.3    
20.6    
20.8    
21.0    
21.2    
21.4    
21.6    
21.8    
22.1    
22.3    
22.5    
22.7    
22.9    
23.1    
23.3    
23.6    
23.8    
24.0    
24.2    
24.4    
24.6    
24.8    
25.1    
25.3    
25.5    
25.7    
25.9    
26.1    
26.3    
26.6    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
28.1    
28.3    
28.5    
28.7    
28.9    
29.1    
29.3    
29.6    
29.8    
30.0    
30.2    
30.4    
30.6    
30.8    
31.0    
31.3    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.8    
33.0    
33.2    
33.4    
33.6    
33.8    
34.0    
34.3    
34.5    
34.7    
34.9    
35.1    
35.3    
35.5    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.5    
38.8    
39.0    
39.2    
39.4    
39.6    
39.8    
40.0    
40.3    
40.5    
40.7    
40.9    
41.1    
41.3    
41.5    
41.8    
42.0    
42.2    
42.4    
42.6    
42.8    
43.0    
43.3    
43.5    
43.7    
43.9    
44.1    
44.3    
44.5    
44.8    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.3    
46.5    
46.7    
46.9    
47.1    
47.3    
47.5    
47.8    
48.0    
48.2    
48.4    
48.6    
48.8    
49.0    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
51.0    
51.2    
51.4    
51.6    
51.8    
52.0    
52.2    
52.5    
52.7    
52.9    
53.1    
53.3    
53.5    
53.7    
54.0    
54.2    
54.4    
54.6    
54.8    
55.0    
55.2    
55.5    
55.7    
55.9    
56.1    
56.3    
56.5    
56.7    
57.0    
57.2    
57.4    
57.6    
57.8    
58.0    
58.2    
58.5    
58.7    
58.9    
59.1    
59.3    
59.5    
59.7    
60.0    
60.2    
60.4    
60.6    
60.8    
61.0    
61.2    
61.5    
61.7    
61.9    
62.1    
62.3    
62.5    
62.7    
63.0    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.5    
64.7    
64.9    
65.1    
65.3    
65.5    
65.7    
66.0    
66.2    
66.4    
66.6    
66.8    
67.0    
67.2    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.7    
69.0    
69.2    
69.4    
69.6    
69.8    
70.0    
70.2    
70.4    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
71.9    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.4    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.2    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.7    
79.9    
80.1    
80.3    
80.5    
80.7    
80.9    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.7    
82.9    
83.1    
83.3    
83.5    
83.7    
83.9    
84.2    
84.4    
84.6    
84.8    
85.0    
85.2    
85.4    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
86.9    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.7    
88.9    
89.1    
89.3    
89.5    
89.7    
89.9    
90.1    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.4    
93.6    
93.8    
94.0    
94.2    
94.4    
94.6    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.6    
97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.1    
99.4    
99.6    
99.8    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 67745, rend_intergenic: 64747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76394, rend_intergenic: 72560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83282, rend_intergenic: 76599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95916, rend_intergenic: 91054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107568, rend_intergenic: 99492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129571, rend_intergenic: 124002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133247, rend_intergenic: 132376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134446, rend_intergenic: 133791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150350, rend_intergenic: 145306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164566, rend_intergenic: 158962  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