-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_12049377-12227780

-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.g26157.t1
Valid prediction for GlimmerHMM_glimmerT_39174-T1
Valid prediction for Augustus_model.g26163.t1
Valid prediction for snap_scaffold_16-snap.2301-T1
Valid prediction for GlimmerHMM_glimmerT_39168-T1
Valid prediction for snap_scaffold_16-snap.2310-T1
Valid prediction for snap_scaffold_16-snap.2290-T1
Valid prediction for snap_scaffold_16-snap.2309-T1
Valid prediction for snap_scaffold_16-snap.2299-T1
Valid prediction for GlimmerHMM_glimmerT_39167-T1
Valid prediction for snap_scaffold_16-snap.2287-T1
Valid prediction for snap_scaffold_16-snap.2314-T1
Valid prediction for Augustus_model.g26166.t1
Valid prediction for snap_scaffold_16-snap.2297-T1
Valid prediction for Augustus_model.g26171.t1
Valid prediction for snap_scaffold_16-snap.2316-T1
Valid prediction for snap_scaffold_16-snap.2308-T1
Valid prediction for snap_scaffold_16-snap.2289-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_39170-T1
Valid prediction for Augustus_model.g26159.t1
Valid prediction for snap_scaffold_16-snap.2306-T1
Couldn't classify 79123, 79216
Couldn't classify 83408, 83500
Sorry, prediction pasa_asmbl_16632.p1 fails validation.
(TCC)	 AT	79123-79216	GT	TCG
(TAC)	 AG	79336-79431	GT	AGG
(CTA)	 AG	79733-79797	GT	AGG
(ATC)	 AG	80878-81013	GT	AGG
(ATC)	 AG	81205-81276	GT	AGG
(TCA)	 AG	82330-82374	GT	AGG
(CAT)	 AG	82749-82825	GT	GCG
(GTT)	 AG	83408-83500	GC	CGG
-recovered pasa_asmbl_16632.p1, internal, 79336, 79431
-recovered pasa_asmbl_16632.p1, internal, 79733, 79797
-recovered pasa_asmbl_16632.p1, internal, 80878, 81013
-recovered pasa_asmbl_16632.p1, internal, 81205, 81276
-recovered pasa_asmbl_16632.p1, internal, 82330, 82374
-recovered pasa_asmbl_16632.p1, internal, 82749, 82825
-recovered pasa_asmbl_16632.p1, internal, 83408, 83500
Valid prediction for Augustus_model.g26158.t1
Valid prediction for GlimmerHMM_glimmerT_39178-T1
Valid prediction for snap_scaffold_16-snap.2293-T1
Valid prediction for GlimmerHMM_glimmerT_39163-T1
Valid prediction for snap_scaffold_16-snap.2313-T1
Valid prediction for snap_scaffold_16-snap.2285-T1
Valid prediction for Augustus_model.g26160.t1
Valid prediction for GlimmerHMM_glimmerT_39162-T1
Valid prediction for snap_scaffold_16-snap.2305-T1
Valid prediction for Augustus_model.g26169.t1
Valid prediction for GlimmerHMM_glimmerT_39164-T1
Valid prediction for GlimmerHMM_glimmerT_39177-T1
Valid prediction for Augustus_model.g26164.t1
Valid prediction for CodingQuarry_transcript_20113-T1
Valid prediction for snap_scaffold_16-snap.2303-T1
Valid prediction for GlimmerHMM_glimmerT_39161-T1
Valid prediction for snap_scaffold_16-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 HiQ_model.g26162.t1
Valid prediction for snap_scaffold_16-snap.2302-T1
Valid prediction for GlimmerHMM_glimmerT_39176-T1
Valid prediction for GlimmerHMM_glimmerT_39173-T1
Valid prediction for snap_scaffold_16-snap.2307-T1
Valid prediction for pasa_asmbl_17390.p1
Valid prediction for GlimmerHMM_glimmerT_39165-T1
Valid prediction for snap_scaffold_16-snap.2294-T1
Valid prediction for snap_scaffold_16-snap.2291-T1
Couldn't classify 107575, 107695
Sorry, prediction pasa_asmbl_17388.p1 fails validation.
(CAG)	 AC	107575-107695	GC	TGG
(ACG)	 AG	107900-108079	GT	TGG
(GTC)	 AG	108405-108523	GT	AGG
(GAT)	 AG	108688-108753	GT	AGG
(TGT)	 AG	108956-109156	GG	GAG
-recovered pasa_asmbl_17388.p1, terminal, 108956, 109156
-recovered pasa_asmbl_17388.p1, internal, 107900, 108079
-recovered pasa_asmbl_17388.p1, internal, 108405, 108523
-recovered pasa_asmbl_17388.p1, internal, 108688, 108753
Valid prediction for snap_scaffold_16-snap.2298-T1
Valid prediction for GlimmerHMM_glimmerT_39160-T1
Valid prediction for Augustus_model.g26168.t1
Valid prediction for snap_scaffold_16-snap.2292-T1
Valid prediction for GlimmerHMM_glimmerT_39169-T1
Valid prediction for snap_scaffold_16-snap.2312-T1
Valid prediction for GlimmerHMM_glimmerT_39166-T1
Valid prediction for snap_scaffold_16-snap.2286-T1
Valid prediction for GlimmerHMM_glimmerT_39171-T1
Valid prediction for CodingQuarry_transcript_20111-T1
Valid prediction for Augustus_model.g26161.t1
Valid prediction for CodingQuarry_transcript_20112-T1
Valid prediction for Augustus_model.g26170.t1
Valid prediction for Augustus_model.g26167.t1
Valid prediction for snap_scaffold_16-snap.2296-T1
Valid prediction for Augustus_model.g26165.t1
Valid prediction for snap_scaffold_16-snap.2300-T1
Valid prediction for snap_scaffold_16-snap.2304-T1
Valid prediction for snap_scaffold_16-snap.2311-T1
Valid prediction for snap_scaffold_16-snap.2295-T1
Valid prediction for snap_scaffold_16-snap.2317-T1
Valid prediction for GlimmerHMM_glimmerT_39172-T1
Valid prediction for snap_scaffold_16-snap.2319-T1
Valid prediction for GlimmerHMM_glimmerT_39175-T1
Valid prediction for snap_scaffold_16-snap.2288-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 51391, rend_intergenic: 44541  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56135, rend_intergenic: 54576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83515, rend_intergenic: 81843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84541, rend_intergenic: 83521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87901, rend_intergenic: 85203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90841, rend_intergenic: 88139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102954, rend_intergenic: 97289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118590, rend_intergenic: 104734  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126758, rend_intergenic: 123457  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152142, rend_intergenic: 145001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 178404
-exon list size: 238


building trellis

0.4    
0.8    
1.2    
1.7    
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2.5    
2.9    
3.3    
3.8    
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4.6    
5.0    
5.4    
5.8    
6.2    
6.7    
7.1    
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7.9    
8.3    
8.8    
9.2    
9.6    
10.0    
10.4    
10.8    
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11.7    
12.1    
12.5    
12.9    
13.3    
13.8    
14.2    
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15.0    
15.4    
15.8    
16.2    
16.7    
17.1    
17.5    
17.9    
18.3    
18.8    
19.2    
19.6    
20.0    
20.4    
20.8    
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21.7    
22.1    
22.5    
22.9    
23.3    
23.8    
24.2    
24.6    
25.0    
25.4    
25.8    
26.2    
26.7    
27.1    
27.5    
27.9    
28.3    
28.7    
29.2    
29.6    
30.0    
30.4    
30.8    
31.2    
31.7    
32.1    
32.5    
32.9    
33.3    
33.8    
34.2    
34.6    
35.0    
35.4    
35.8    
36.2    
36.7    
37.1    
37.5    
37.9    
38.3    
38.8    
39.2    
39.6    
40.0    
40.4    
40.8    
41.2    
41.7    
42.1    
42.5    
42.9    
43.3    
43.8    
44.2    
44.6    
45.0    
45.4    
45.8    
46.2    
46.7    
47.1    
47.5    
47.9    
48.3    
48.8    
49.2    
49.6    
50.0    
50.4    
50.8    
51.2    
51.7    
52.1    
52.5    
52.9    
53.3    
53.8    
54.2    
54.6    
55.0    
55.4    
55.8    
56.2    
56.7    
57.1    
57.5    
57.9    
58.3    
58.8    
59.2    
59.6    
60.0    
60.4    
60.8    
61.3    
61.7    
62.1    
62.5    
62.9    
63.3    
63.7    
64.2    
64.6    
65.0    
65.4    
65.8    
66.2    
66.7    
67.1    
67.5    
67.9    
68.3    
68.8    
69.2    
69.6    
70.0    
70.4    
70.8    
71.2    
71.7    
72.1    
72.5    
72.9    
73.3    
73.8    
74.2    
74.6    
75.0    
75.4    
75.8    
76.2    
76.7    
77.1    
77.5    
77.9    
78.3    
78.8    
79.2    
79.6    
80.0    
80.4    
80.8    
81.2    
81.7    
82.1    
82.5    
82.9    
83.3    
83.8    
84.2    
84.6    
85.0    
85.4    
85.8    
86.2    
86.7    
87.1    
87.5    
87.9    
88.3    
88.8    
89.2    
89.6    
90.0    
90.4    
90.8    
91.2    
91.7    
92.1    
92.5    
92.9    
93.3    
93.8    
94.2    
94.6    
95.0    
95.4    
95.8    
96.2    
96.7    
97.1    
97.5    
97.9    
98.3    
98.8    
99.2    
99.6    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 51391, rend_intergenic: 44541  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56135, rend_intergenic: 54576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83515, rend_intergenic: 81843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84541, rend_intergenic: 83521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87901, rend_intergenic: 85203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90841, rend_intergenic: 88139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102954, rend_intergenic: 97289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118590, rend_intergenic: 104734  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126758, rend_intergenic: 123457  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152142, rend_intergenic: 145001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 164487 - 178404
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
80.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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