-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_11497634-11641084

-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_16-snap.2186-T1
Couldn't classify 131704, 132037
Couldn't classify 132164, 132225
Sorry, prediction pasa_asmbl_16823.p1 fails validation.
(GGG)	 CC	131704-132037	GT	GGG
(GTA)	 AG	132164-132225	GG	AGG
Valid prediction for Augustus_model.g26106.t1
Valid prediction for Augustus_model.g26105.t1
Valid prediction for snap_scaffold_16-snap.2158-T1
Valid prediction for Augustus_model.g26101.t1
Valid prediction for snap_scaffold_16-snap.2171-T1
Valid prediction for GlimmerHMM_glimmerT_39085-T1
Valid prediction for GlimmerHMM_glimmerT_39088-T1
Valid prediction for snap_scaffold_16-snap.2178-T1
Valid prediction for GlimmerHMM_glimmerT_39093-T1
Valid prediction for snap_scaffold_16-snap.2170-T1
Couldn't classify 128369, 128443
Couldn't classify 130874, 130957
Sorry, prediction pasa_asmbl_16590.p1 fails validation.
(GAG)	 AG	128369-128443	GT	AGG
(TGG)	 AG	129266-129445	GT	GGG
(GTG)	 AG	130003-130182	GT	AGG
(GGT)	 AG	130552-130731	GT	AGG
(GGA)	 AG	130874-130957	CG	GAC
-recovered pasa_asmbl_16590.p1, internal, 128369, 128443
-recovered pasa_asmbl_16590.p1, internal, 129266, 129445
-recovered pasa_asmbl_16590.p1, internal, 130003, 130182
-recovered pasa_asmbl_16590.p1, internal, 130552, 130731
Valid prediction for snap_scaffold_16-snap.2183-T1
Valid prediction for snap_scaffold_16-snap.2165-T1
Valid prediction for GlimmerHMM_glimmerT_39092-T1
Couldn't classify 71570, 71932
Sorry, prediction pasa_asmbl_17509.p2 fails validation.
(TCC)	 CC	71570-71932	CT	GTC
Valid prediction for snap_scaffold_16-snap.2179-T1
Valid prediction for GlimmerHMM_glimmerT_39094-T1
Valid prediction for snap_scaffold_16-snap.2176-T1
Valid prediction for snap_scaffold_16-snap.2182-T1
Valid prediction for snap_scaffold_16-snap.2188-T1
Valid prediction for snap_scaffold_16-snap.2181-T1
Valid prediction for GlimmerHMM_glimmerT_39081-T1
Valid prediction for snap_scaffold_16-snap.2167-T1
Valid prediction for Augustus_model.g26104.t1
Valid prediction for GlimmerHMM_glimmerT_39096-T1
Valid prediction for GlimmerHMM_glimmerT_39080-T1
Valid prediction for snap_scaffold_16-snap.2175-T1
Valid prediction for GlimmerHMM_glimmerT_39089-T1
Couldn't classify 107146, 107251
Sorry, prediction pasa_asmbl_16588.p1 fails validation.
(TGG)	 GG	107146-107251	GT	AGG
(GAG)	 AG	107918-108101	GT	AGG
(GTT)	 AG	108235-108346	GT	AGG
(ATC)	 AG	108997-109134	GT	AGG
(GCC)	 AG	109393-109734	CT	GAC
-recovered pasa_asmbl_16588.p1, terminal, 109393, 109734
-recovered pasa_asmbl_16588.p1, internal, 107918, 108101
-recovered pasa_asmbl_16588.p1, internal, 108235, 108346
-recovered pasa_asmbl_16588.p1, internal, 108997, 109134
Valid prediction for snap_scaffold_16-snap.2184-T1
Valid prediction for Augustus_model.g26107.t1
Valid prediction for GlimmerHMM_glimmerT_39083-T1
Valid prediction for HiQ_model.g26103.t1
Valid prediction for snap_scaffold_16-snap.2172-T1
Valid prediction for GlimmerHMM_glimmerT_39087-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_16-snap.2173-T1
Valid prediction for snap_scaffold_16-snap.2162-T1
Valid prediction for snap_scaffold_16-snap.2164-T1
Valid prediction for snap_scaffold_16-snap.2157-T1
Valid prediction for GlimmerHMM_glimmerT_39090-T1
Valid prediction for snap_scaffold_16-snap.2174-T1
Valid prediction for GlimmerHMM_glimmerT_39091-T1
Valid prediction for snap_scaffold_16-snap.2180-T1
Valid prediction for snap_scaffold_16-snap.2168-T1
Valid prediction for snap_scaffold_16-snap.2177-T1
Valid prediction for Augustus_model.g26099.t1
Valid prediction for snap_scaffold_16-snap.2163-T1
Valid prediction for snap_scaffold_16-snap.2160-T1
Valid prediction for snap_scaffold_16-snap.2169-T1
Valid prediction for snap_scaffold_16-snap.2187-T1
Valid prediction for GlimmerHMM_glimmerT_39086-T1
Valid prediction for snap_scaffold_16-snap.2166-T1
Valid prediction for GlimmerHMM_glimmerT_39082-T1
Valid prediction for Augustus_model.g26100.t1
Valid prediction for snap_scaffold_16-snap.2185-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.2161-T1
Valid prediction for Augustus_model.g26102.t1
Couldn't classify 39260, 39871
Sorry, prediction pasa_asmbl_17354.p1 fails validation.
(ATG)	 GG	37174-37197	GT	AGG
(AGA)	 AG	37592-37616	GT	AGG
(CGC)	 AG	38638-38717	GT	AGG
(AAT)	 AG	39260-39871	AA	CCA
-recovered pasa_asmbl_17354.p1, initial, 37174, 37197
-recovered pasa_asmbl_17354.p1, internal, 37592, 37616
-recovered pasa_asmbl_17354.p1, internal, 38638, 38717
Valid prediction for GlimmerHMM_glimmerT_39095-T1
Couldn't classify 40286, 41020
Sorry, prediction pasa_asmbl_17352.p1 fails validation.
(CAT)	 AA	40286-41020	GT	GGG
(GAG)	 AG	43975-43998	CC	AAC
-recovered pasa_asmbl_17352.p1, terminal, 43975, 43998
Valid prediction for GlimmerHMM_glimmerT_39084-T1
Valid prediction for snap_scaffold_16-snap.2159-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8129, rend_intergenic: 5532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50441, rend_intergenic: 49466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53839, rend_intergenic: 51475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69070, rend_intergenic: 67425  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74297, rend_intergenic: 70614  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90234, rend_intergenic: 83550  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95516, rend_intergenic: 92994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101185, rend_intergenic: 100676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126233, rend_intergenic: 120496  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131155, rend_intergenic: 126298  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140960, rend_intergenic: 134493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 143451
-exon list size: 226


building trellis

0.4    
0.9    
1.3    
1.8    
2.2    
2.6    
3.1    
3.5    
3.9    
4.4    
4.8    
5.3    
5.7    
6.1    
6.6    
7.0    
7.5    
7.9    
8.3    
8.8    
9.2    
9.6    
10.1    
10.5    
11.0    
11.4    
11.8    
12.3    
12.7    
13.2    
13.6    
14.0    
14.5    
14.9    
15.4    
15.8    
16.2    
16.7    
17.1    
17.5    
18.0    
18.4    
18.9    
19.3    
19.7    
20.2    
20.6    
21.1    
21.5    
21.9    
22.4    
22.8    
23.2    
23.7    
24.1    
24.6    
25.0    
25.4    
25.9    
26.3    
26.8    
27.2    
27.6    
28.1    
28.5    
28.9    
29.4    
29.8    
30.3    
30.7    
31.1    
31.6    
32.0    
32.5    
32.9    
33.3    
33.8    
34.2    
34.6    
35.1    
35.5    
36.0    
36.4    
36.8    
37.3    
37.7    
38.2    
38.6    
39.0    
39.5    
39.9    
40.4    
40.8    
41.2    
41.7    
42.1    
42.5    
43.0    
43.4    
43.9    
44.3    
44.7    
45.2    
45.6    
46.1    
46.5    
46.9    
47.4    
47.8    
48.2    
48.7    
49.1    
49.6    
50.0    
50.4    
50.9    
51.3    
51.8    
52.2    
52.6    
53.1    
53.5    
53.9    
54.4    
54.8    
55.3    
55.7    
56.1    
56.6    
57.0    
57.5    
57.9    
58.3    
58.8    
59.2    
59.6    
60.1    
60.5    
61.0    
61.4    
61.8    
62.3    
62.7    
63.2    
63.6    
64.0    
64.5    
64.9    
65.4    
65.8    
66.2    
66.7    
67.1    
67.5    
68.0    
68.4    
68.9    
69.3    
69.7    
70.2    
70.6    
71.1    
71.5    
71.9    
72.4    
72.8    
73.2    
73.7    
74.1    
74.6    
75.0    
75.4    
75.9    
76.3    
76.8    
77.2    
77.6    
78.1    
78.5    
78.9    
79.4    
79.8    
80.3    
80.7    
81.1    
81.6    
82.0    
82.5    
82.9    
83.3    
83.8    
84.2    
84.6    
85.1    
85.5    
86.0    
86.4    
86.8    
87.3    
87.7    
88.2    
88.6    
89.0    
89.5    
89.9    
90.4    
90.8    
91.2    
91.7    
92.1    
92.5    
93.0    
93.4    
93.9    
94.3    
94.7    
95.2    
95.6    
96.1    
96.5    
96.9    
97.4    
97.8    
98.2    
98.7    
99.1    
99.6    
-found 21 predictions from path traversal
Error with prediction: snap lend_intergenic: 8129, rend_intergenic: 5532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50441, rend_intergenic: 49466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53839, rend_intergenic: 51475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69070, rend_intergenic: 67425  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74297, rend_intergenic: 70614  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90234, rend_intergenic: 83550  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95516, rend_intergenic: 92994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101185, rend_intergenic: 100676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126233, rend_intergenic: 120496  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131155, rend_intergenic: 126298  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140960, rend_intergenic: 134493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support