-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_11353118-11539049

-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_17-snap.2322-T1
Valid prediction for GlimmerHMM_glimmerT_41094-T1
Valid prediction for snap_scaffold_17-snap.2320-T1
Valid prediction for snap_scaffold_17-snap.2314-T1
Valid prediction for snap_scaffold_17-snap.2306-T1
Valid prediction for GlimmerHMM_glimmerT_41090-T1
Valid prediction for GlimmerHMM_glimmerT_41092-T1
Valid prediction for GlimmerHMM_glimmerT_41073-T1
Valid prediction for CodingQuarry_transcript_22175-T1
Valid prediction for snap_scaffold_17-snap.2297-T1
Valid prediction for snap_scaffold_17-snap.2309-T1
Valid prediction for snap_scaffold_17-snap.2315-T1
Valid prediction for snap_scaffold_17-snap.2312-T1
Valid prediction for GlimmerHMM_glimmerT_41097-T1
Valid prediction for snap_scaffold_17-snap.2316-T1
Valid prediction for Augustus_model.g27402.t1
Valid prediction for snap_scaffold_17-snap.2292-T1
Valid prediction for Augustus_model.g27411.t1
Valid prediction for GlimmerHMM_glimmerT_41098-T1
Valid prediction for GlimmerHMM_glimmerT_41099-T1
Valid prediction for snap_scaffold_17-snap.2328-T1
Valid prediction for Augustus_model.g27409.t1
Valid prediction for snap_scaffold_17-snap.2324-T1
Valid prediction for Augustus_model.g27414.t1
Valid prediction for GlimmerHMM_glimmerT_41084-T1
Valid prediction for GlimmerHMM_glimmerT_41088-T1
Valid prediction for snap_scaffold_17-snap.2326-T1
Valid prediction for snap_scaffold_17-snap.2299-T1
Valid prediction for snap_scaffold_17-snap.2293-T1
Valid prediction for GlimmerHMM_glimmerT_41082-T1
Valid prediction for HiQ_model.g27412.t1
Valid prediction for CodingQuarry_transcript_22176-T1
Valid prediction for pasa_asmbl_19231.p1
Valid prediction for snap_scaffold_17-snap.2305-T1
Valid prediction for snap_scaffold_17-snap.2303-T1
Couldn't classify 143775, 143877
Sorry, prediction pasa_asmbl_19224.p1 fails validation.
(ATG)	 AA	139715-139718	GT	GGG
(AAC)	 AG	141596-141729	GT	AGG
(CTC)	 AG	142304-142396	GT	CGG
(GAA)	 AG	142596-142695	GT	AGG
(AGC)	 AG	142808-142902	GT	AGG
(TTC)	 AG	143096-143227	GT	AGG
(GCT)	 AG	143604-143692	GT	ACG
(CCT)	 AG	143775-143877	CA	TAC
-recovered pasa_asmbl_19224.p1, initial, 139715, 139718
-recovered pasa_asmbl_19224.p1, internal, 141596, 141729
-recovered pasa_asmbl_19224.p1, internal, 142304, 142396
-recovered pasa_asmbl_19224.p1, internal, 142596, 142695
-recovered pasa_asmbl_19224.p1, internal, 142808, 142902
-recovered pasa_asmbl_19224.p1, internal, 143096, 143227
-recovered pasa_asmbl_19224.p1, internal, 143604, 143692
Couldn't classify 152115, 152165
Sorry, prediction pasa_asmbl_19228.p1 fails validation.
(CTT)	 AA	152115-152165	GT	AGG
(TTA)	 AG	152852-152965	GT	AGG
(GAA)	 AG	153068-153150	GT	AGG
(GCT)	 AG	153266-153436	GT	AGG
(GCC)	 AG	153589-153772	GT	AGG
(GTG)	 AG	153901-154090	GT	CGG
(GTG)	 AG	154340-154552	GT	AGG
(GGG)	 AG	154891-155057	GT	CGG
(ACG)	 AG	155213-155294	GT	GGG
(GAG)	 AG	155517-155662	GT	AGG
(GGT)	 AG	156055-156132	CT	AAC
-recovered pasa_asmbl_19228.p1, terminal, 156055, 156132
-recovered pasa_asmbl_19228.p1, internal, 152852, 152965
-recovered pasa_asmbl_19228.p1, internal, 153068, 153150
-recovered pasa_asmbl_19228.p1, internal, 153266, 153436
-recovered pasa_asmbl_19228.p1, internal, 153589, 153772
-recovered pasa_asmbl_19228.p1, internal, 153901, 154090
-recovered pasa_asmbl_19228.p1, internal, 154340, 154552
-recovered pasa_asmbl_19228.p1, internal, 154891, 155057
-recovered pasa_asmbl_19228.p1, internal, 155213, 155294
-recovered pasa_asmbl_19228.p1, internal, 155517, 155662
Valid prediction for Augustus_model.g27408.t1
Couldn't classify 177977, 178254
Couldn't classify 178646, 178682
Sorry, prediction pasa_asmbl_19470.p1 fails validation.
(CCC)	 GC	177977-178254	GT	AGG
(ATC)	 AG	178646-178682	GA	AGG
Valid prediction for snap_scaffold_17-snap.2327-T1
Valid prediction for snap_scaffold_17-snap.2308-T1
Valid prediction for HiQ_model.g27413.t1
Valid prediction for snap_scaffold_17-snap.2318-T1
Valid prediction for GlimmerHMM_glimmerT_41093-T1
Valid prediction for GlimmerHMM_glimmerT_41087-T1
Valid prediction for GlimmerHMM_glimmerT_41089-T1
Valid prediction for CodingQuarry_transcript_22177-T1
Valid prediction for GlimmerHMM_glimmerT_41096-T1
Couldn't classify 145449, 145577
Sorry, prediction pasa_asmbl_19226.p1 fails validation.
(CAG)	 TA	145449-145577	GT	AGG
(ACG)	 AG	145795-145922	GT	AGG
(GTA)	 AG	146094-146272	GT	TGG
(GCC)	 AG	146463-146650	CT	AAC
-recovered pasa_asmbl_19226.p1, terminal, 146463, 146650
-recovered pasa_asmbl_19226.p1, internal, 145795, 145922
-recovered pasa_asmbl_19226.p1, internal, 146094, 146272
Valid prediction for snap_scaffold_17-snap.2325-T1
Valid prediction for GlimmerHMM_glimmerT_41079-T1
Valid prediction for GlimmerHMM_glimmerT_41080-T1
Valid prediction for GlimmerHMM_glimmerT_41074-T1
Couldn't classify 2335, 2448
Sorry, prediction pasa_asmbl_19457.p1 fails validation.
(GCC)	 CA	2335-2448	GT	ATG
(TCC)	 AG	2670-2737	GT	GCG
(AGA)	 AG	2948-3006	GT	CGG
(CCC)	 AG	3133-3236	AC	GAA
-recovered pasa_asmbl_19457.p1, terminal, 3133, 3236
-recovered pasa_asmbl_19457.p1, internal, 2670, 2737
-recovered pasa_asmbl_19457.p1, internal, 2948, 3006
Valid prediction for snap_scaffold_17-snap.2311-T1
Valid prediction for GlimmerHMM_glimmerT_41095-T1
Valid prediction for GlimmerHMM_glimmerT_41091-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_17-snap.2310-T1
Valid prediction for snap_scaffold_17-snap.2295-T1
Valid prediction for snap_scaffold_17-snap.2317-T1
Valid prediction for snap_scaffold_17-snap.2298-T1
Valid prediction for snap_scaffold_17-snap.2321-T1
Valid prediction for Augustus_model.g27405.t1
Valid prediction for GlimmerHMM_glimmerT_41085-T1
Valid prediction for snap_scaffold_17-snap.2296-T1
Valid prediction for snap_scaffold_17-snap.2307-T1
Valid prediction for Augustus_model.g27403.t1
Valid prediction for snap_scaffold_17-snap.2294-T1
Valid prediction for snap_scaffold_17-snap.2302-T1
Valid prediction for Augustus_model.g27406.t1
Valid prediction for snap_scaffold_17-snap.2330-T1
Valid prediction for snap_scaffold_17-snap.2291-T1
Valid prediction for snap_scaffold_17-snap.2323-T1
Valid prediction for GlimmerHMM_glimmerT_41077-T1
Valid prediction for Augustus_model.g27407.t1
Valid prediction for snap_scaffold_17-snap.2319-T1
Valid prediction for snap_scaffold_17-snap.2300-T1
Valid prediction for snap_scaffold_17-snap.2301-T1
Valid prediction for GlimmerHMM_glimmerT_41083-T1
Valid prediction for Augustus_model.g27404.t1
Valid prediction for snap_scaffold_17-snap.2329-T1
Valid prediction for snap_scaffold_17-snap.2331-T1
Valid prediction for GlimmerHMM_glimmerT_41075-T1
Valid prediction for Augustus_model.g27410.t1
Valid prediction for snap_scaffold_17-snap.2313-T1
Valid prediction for GlimmerHMM_glimmerT_41076-T1
Valid prediction for GlimmerHMM_glimmerT_41078-T1
Valid prediction for snap_scaffold_17-snap.2304-T1
Valid prediction for GlimmerHMM_glimmerT_41081-T1
Valid prediction for GlimmerHMM_glimmerT_41086-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 28997, rend_intergenic: 12347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32447, rend_intergenic: 29343  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34313, rend_intergenic: 33470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49188, rend_intergenic: 35159  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55460, rend_intergenic: 49889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64386, rend_intergenic: 55658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65026, rend_intergenic: 64597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71185, rend_intergenic: 65214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80940, rend_intergenic: 72295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107807, rend_intergenic: 90581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120443, rend_intergenic: 112525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125766, rend_intergenic: 124030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126418, rend_intergenic: 126084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132366, rend_intergenic: 126789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143696, rend_intergenic: 141028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144453, rend_intergenic: 143722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182326, rend_intergenic: 171961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 185932
-exon list size: 331


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 28997, rend_intergenic: 12347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32447, rend_intergenic: 29343  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34313, rend_intergenic: 33470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49188, rend_intergenic: 35159  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55460, rend_intergenic: 49889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64386, rend_intergenic: 55658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65026, rend_intergenic: 64597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71185, rend_intergenic: 65214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80940, rend_intergenic: 72295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107807, rend_intergenic: 90581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120443, rend_intergenic: 112525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125766, rend_intergenic: 124030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126418, rend_intergenic: 126084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132366, rend_intergenic: 126789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143696, rend_intergenic: 141028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144453, rend_intergenic: 143722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182326, rend_intergenic: 171961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support