-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_6783356-6974279

-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_11-snap.1591-T1
Valid prediction for HiQ_model.g18079.t1
Valid prediction for snap_scaffold_11-snap.1617-T1
Valid prediction for Augustus_model.g18073.t1
Valid prediction for snap_scaffold_11-snap.1609-T1
Valid prediction for GlimmerHMM_glimmerT_27314-T1
Valid prediction for Augustus_model.g18077.t1
Valid prediction for pasa_asmbl_5639.p1
Valid prediction for Augustus_model.g18078.t1
Valid prediction for snap_scaffold_11-snap.1603-T1
Valid prediction for GlimmerHMM_glimmerT_27308-T1
Valid prediction for snap_scaffold_11-snap.1593-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_27312-T1
Valid prediction for snap_scaffold_11-snap.1612-T1
Valid prediction for snap_scaffold_11-snap.1588-T1
Valid prediction for snap_scaffold_11-snap.1618-T1
Valid prediction for snap_scaffold_11-snap.1594-T1
Valid prediction for GlimmerHMM_glimmerT_27318-T1
Valid prediction for GlimmerHMM_glimmerT_27306-T1
Valid prediction for snap_scaffold_11-snap.1611-T1
Valid prediction for snap_scaffold_11-snap.1580-T1
Valid prediction for CodingQuarry_transcript_8107-T1
Valid prediction for snap_scaffold_11-snap.1605-T1
Valid prediction for snap_scaffold_11-snap.1585-T1
Valid prediction for snap_scaffold_11-snap.1619-T1
Valid prediction for snap_scaffold_11-snap.1622-T1
Valid prediction for snap_scaffold_11-snap.1581-T1
Valid prediction for GlimmerHMM_glimmerT_27302-T1
Valid prediction for snap_scaffold_11-snap.1592-T1
Valid prediction for snap_scaffold_11-snap.1597-T1
Valid prediction for snap_scaffold_11-snap.1595-T1
Valid prediction for GlimmerHMM_glimmerT_27309-T1
Valid prediction for snap_scaffold_11-snap.1601-T1
Valid prediction for snap_scaffold_11-snap.1600-T1
Valid prediction for GlimmerHMM_glimmerT_27313-T1
Valid prediction for snap_scaffold_11-snap.1616-T1
Valid prediction for snap_scaffold_11-snap.1608-T1
Valid prediction for snap_scaffold_11-snap.1586-T1
Valid prediction for GlimmerHMM_glimmerT_27310-T1
Valid prediction for snap_scaffold_11-snap.1624-T1
Valid prediction for GlimmerHMM_glimmerT_27299-T1
Valid prediction for snap_scaffold_11-snap.1610-T1
Valid prediction for snap_scaffold_11-snap.1621-T1
Valid prediction for snap_scaffold_11-snap.1625-T1
Valid prediction for snap_scaffold_11-snap.1583-T1
Valid prediction for GlimmerHMM_glimmerT_27317-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 Augustus_model.g18074.t1
Valid prediction for GlimmerHMM_glimmerT_27300-T1
Valid prediction for GlimmerHMM_glimmerT_27303-T1
Valid prediction for GlimmerHMM_glimmerT_27301-T1
Valid prediction for snap_scaffold_11-snap.1579-T1
Valid prediction for snap_scaffold_11-snap.1587-T1
Valid prediction for GlimmerHMM_glimmerT_27311-T1
Valid prediction for Augustus_model.g18081.t1
Valid prediction for snap_scaffold_11-snap.1589-T1
Couldn't classify 139285, 139374
Sorry, prediction pasa_asmbl_6744.p1 fails validation.
(CTG)	 GC	139285-139374	GT	AGG
(TGC)	 AG	139867-139964	GT	AGG
(GAC)	 AG	140289-140466	GT	AGG
(GTG)	 AG	140875-141030	GT	AGG
(ATC)	 AG	141594-141691	GT	AGG
(GTT)	 AG	141864-142157	GT	AGG
(AGA)	 AG	142507-142636	GT	AGG
(CCT)	 AG	142971-143054	GT	TGG
(CAC)	 AG	144032-144178	GT	AGG
(ATC)	 AG	145166-145354	CC	AAC
-recovered pasa_asmbl_6744.p1, terminal, 145166, 145354
-recovered pasa_asmbl_6744.p1, internal, 139867, 139964
-recovered pasa_asmbl_6744.p1, internal, 140289, 140466
-recovered pasa_asmbl_6744.p1, internal, 140875, 141030
-recovered pasa_asmbl_6744.p1, internal, 141594, 141691
-recovered pasa_asmbl_6744.p1, internal, 141864, 142157
-recovered pasa_asmbl_6744.p1, internal, 142507, 142636
-recovered pasa_asmbl_6744.p1, internal, 142971, 143054
-recovered pasa_asmbl_6744.p1, internal, 144032, 144178
Valid prediction for snap_scaffold_11-snap.1602-T1
Valid prediction for snap_scaffold_11-snap.1606-T1
Valid prediction for Augustus_model.g18076.t1
Valid prediction for GlimmerHMM_glimmerT_27305-T1
Valid prediction for snap_scaffold_11-snap.1598-T1
Valid prediction for snap_scaffold_11-snap.1620-T1
Valid prediction for GlimmerHMM_glimmerT_27320-T1
Valid prediction for Augustus_model.g18080.t1
Valid prediction for snap_scaffold_11-snap.1626-T1
Valid prediction for snap_scaffold_11-snap.1623-T1
Valid prediction for GlimmerHMM_glimmerT_27319-T1
Valid prediction for snap_scaffold_11-snap.1615-T1
Valid prediction for GlimmerHMM_glimmerT_27304-T1
Valid prediction for GlimmerHMM_glimmerT_27315-T1
Valid prediction for snap_scaffold_11-snap.1584-T1
Valid prediction for GlimmerHMM_glimmerT_27316-T1
Valid prediction for snap_scaffold_11-snap.1607-T1
Valid prediction for snap_scaffold_11-snap.1604-T1
Valid prediction for snap_scaffold_11-snap.1599-T1
Valid prediction for snap_scaffold_11-snap.1582-T1
Valid prediction for snap_scaffold_11-snap.1613-T1
Couldn't classify 12844, 12968
Sorry, prediction pasa_asmbl_6746.p1 fails validation.
(GAG)	 GG	12844-12968	GT	AGG
(GGG)	 AG	13380-13443	GT	AGG
(GAT)	 AG	14682-14799	GT	GGG
(GGG)	 AG	15122-15224	GT	CGG
(GTC)	 AG	15419-15518	GT	TGG
(TTC)	 AG	16136-16324	GT	TTG
(CTG)	 AG	17559-17633	GT	AGG
(AAA)	 AG	18073-18131	GT	TAG
(TAA)	 AG	19027-19223	GT	CAG
(CCT)	 AG	19836-19987	GT	TGG
(AGC)	 AG	20313-20502	GT	ATG
(GTG)	 AG	20599-20688	GT	GGG
(AGG)	 AG	20911-21063	GT	GGG
(GAA)	 AG	21854-21966	GA	GAG
-recovered pasa_asmbl_6746.p1, terminal, 21854, 21966
-recovered pasa_asmbl_6746.p1, internal, 13380, 13443
-recovered pasa_asmbl_6746.p1, internal, 14682, 14799
-recovered pasa_asmbl_6746.p1, internal, 15122, 15224
-recovered pasa_asmbl_6746.p1, internal, 15419, 15518
-recovered pasa_asmbl_6746.p1, internal, 16136, 16324
-recovered pasa_asmbl_6746.p1, internal, 17559, 17633
-recovered pasa_asmbl_6746.p1, internal, 18073, 18131
-recovered pasa_asmbl_6746.p1, internal, 19027, 19223
-recovered pasa_asmbl_6746.p1, internal, 19836, 19987
-recovered pasa_asmbl_6746.p1, internal, 20313, 20502
-recovered pasa_asmbl_6746.p1, internal, 20599, 20688
-recovered pasa_asmbl_6746.p1, internal, 20911, 21063
Valid prediction for GlimmerHMM_glimmerT_27307-T1
Valid prediction for snap_scaffold_11-snap.1596-T1
Valid prediction for Augustus_model.g18075.t1
Valid prediction for snap_scaffold_11-snap.1590-T1
Valid prediction for snap_scaffold_11-snap.1614-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17434, rend_intergenic: 6126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19105, rend_intergenic: 18044  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21641, rend_intergenic: 19677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34659, rend_intergenic: 24781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39673, rend_intergenic: 35110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67512, rend_intergenic: 49821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72738, rend_intergenic: 69897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76845, rend_intergenic: 74505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84219, rend_intergenic: 80713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95694, rend_intergenic: 94914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106258, rend_intergenic: 102303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111560, rend_intergenic: 108388  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114709, rend_intergenic: 112443  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137247, rend_intergenic: 128365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156949, rend_intergenic: 138516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162631, rend_intergenic: 160383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173798, rend_intergenic: 169202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186476, rend_intergenic: 174896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188974, rend_intergenic: 186600  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 190924
-exon list size: 371


building trellis

0.3    
0.5    
0.8    
1.1    
1.3    
1.6    
1.9    
2.1    
2.4    
2.7    
2.9    
3.2    
3.5    
3.8    
4.0    
4.3    
4.6    
4.8    
5.1    
5.4    
5.6    
5.9    
6.2    
6.4    
6.7    
7.0    
7.2    
7.5    
7.8    
8.0    
8.3    
8.6    
8.8    
9.1    
9.4    
9.7    
9.9    
10.2    
10.5    
10.7    
11.0    
11.3    
11.5    
11.8    
12.1    
12.3    
12.6    
12.9    
13.1    
13.4    
13.7    
13.9    
14.2    
14.5    
14.7    
15.0    
15.3    
15.5    
15.8    
16.1    
16.4    
16.6    
16.9    
17.2    
17.4    
17.7    
18.0    
18.2    
18.5    
18.8    
19.0    
19.3    
19.6    
19.8    
20.1    
20.4    
20.6    
20.9    
21.2    
21.4    
21.7    
22.0    
22.3    
22.5    
22.8    
23.1    
23.3    
23.6    
23.9    
24.1    
24.4    
24.7    
24.9    
25.2    
25.5    
25.7    
26.0    
26.3    
26.5    
26.8    
27.1    
27.3    
27.6    
27.9    
28.2    
28.4    
28.7    
29.0    
29.2    
29.5    
29.8    
30.0    
30.3    
30.6    
30.8    
31.1    
31.4    
31.6    
31.9    
32.2    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.6    
34.9    
35.1    
35.4    
35.7    
35.9    
36.2    
36.5    
36.7    
37.0    
37.3    
37.5    
37.8    
38.1    
38.3    
38.6    
38.9    
39.1    
39.4    
39.7    
39.9    
40.2    
40.5    
40.8    
41.0    
41.3    
41.6    
41.8    
42.1    
42.4    
42.6    
42.9    
43.2    
43.4    
43.7    
44.0    
44.2    
44.5    
44.8    
45.0    
45.3    
45.6    
45.8    
46.1    
46.4    
46.6    
46.9    
47.2    
47.5    
47.7    
48.0    
48.3    
48.5    
48.8    
49.1    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
50.9    
51.2    
51.5    
51.7    
52.0    
52.3    
52.5    
52.8    
53.1    
53.4    
53.6    
53.9    
54.2    
54.4    
54.7    
55.0    
55.2    
55.5    
55.8    
56.0    
56.3    
56.6    
56.8    
57.1    
57.4    
57.6    
57.9    
58.2    
58.4    
58.7    
59.0    
59.2    
59.5    
59.8    
60.1    
60.3    
60.6    
60.9    
61.1    
61.4    
61.7    
61.9    
62.2    
62.5    
62.7    
63.0    
63.3    
63.5    
63.8    
64.1    
64.3    
64.6    
64.9    
65.1    
65.4    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.8    
68.1    
68.4    
68.6    
68.9    
69.2    
69.4    
69.7    
70.0    
70.2    
70.5    
70.8    
71.0    
71.3    
71.6    
71.8    
72.1    
72.4    
72.7    
72.9    
73.2    
73.5    
73.7    
74.0    
74.3    
74.5    
74.8    
75.1    
75.3    
75.6    
75.9    
76.1    
76.4    
76.7    
76.9    
77.2    
77.5    
77.7    
78.0    
78.3    
78.6    
78.8    
79.1    
79.4    
79.6    
79.9    
80.2    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.0    
82.3    
82.6    
82.8    
83.1    
83.4    
83.6    
83.9    
84.2    
84.5    
84.7    
85.0    
85.3    
85.5    
85.8    
86.1    
86.3    
86.6    
86.9    
87.1    
87.4    
87.7    
87.9    
88.2    
88.5    
88.7    
89.0    
89.3    
89.5    
89.8    
90.1    
90.3    
90.6    
90.9    
91.2    
91.4    
91.7    
92.0    
92.2    
92.5    
92.8    
93.0    
93.3    
93.6    
93.8    
94.1    
94.4    
94.6    
94.9    
95.2    
95.4    
95.7    
96.0    
96.2    
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 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 17434, rend_intergenic: 6126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19105, rend_intergenic: 18044  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21641, rend_intergenic: 19677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34659, rend_intergenic: 24781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39673, rend_intergenic: 35110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67512, rend_intergenic: 49821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72738, rend_intergenic: 69897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76845, rend_intergenic: 74505  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84219, rend_intergenic: 80713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95694, rend_intergenic: 94914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106258, rend_intergenic: 102303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111560, rend_intergenic: 108388  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114709, rend_intergenic: 112443  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137247, rend_intergenic: 128365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156949, rend_intergenic: 138516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162631, rend_intergenic: 160383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173798, rend_intergenic: 169202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186476, rend_intergenic: 174896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188974, rend_intergenic: 186600  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