-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_5851754-5976990

-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 GlimmerHMM_glimmerT_55771-T1
Valid prediction for GlimmerHMM_glimmerT_55789-T1
Valid prediction for GlimmerHMM_glimmerT_55794-T1
Valid prediction for GlimmerHMM_glimmerT_55798-T1
Valid prediction for snap_scaffold_26-snap.1321-T1
Valid prediction for CodingQuarry_transcript_40376-T1
Valid prediction for GlimmerHMM_glimmerT_55801-T1
Valid prediction for snap_scaffold_26-snap.1325-T1
Valid prediction for GlimmerHMM_glimmerT_55793-T1
Valid prediction for Augustus_model.g36978.t1
Valid prediction for snap_scaffold_26-snap.1313-T1
Valid prediction for snap_scaffold_26-snap.1338-T1
Valid prediction for GlimmerHMM_glimmerT_55783-T1
Valid prediction for snap_scaffold_26-snap.1340-T1
Valid prediction for GlimmerHMM_glimmerT_55781-T1
Valid prediction for pasa_asmbl_35049.p1
Valid prediction for snap_scaffold_26-snap.1318-T1
Valid prediction for snap_scaffold_26-snap.1322-T1
Valid prediction for snap_scaffold_26-snap.1320-T1
Valid prediction for CodingQuarry_transcript_40373-T1
Valid prediction for HiQ_model.g36974.t1
Valid prediction for pasa_asmbl_35050.p1
Valid prediction for snap_scaffold_26-snap.1326-T1
Valid prediction for snap_scaffold_26-snap.1327-T1
Valid prediction for CodingQuarry_transcript_40371-T1
Valid prediction for snap_scaffold_26-snap.1324-T1
Valid prediction for snap_scaffold_26-snap.1310-T1
Valid prediction for GlimmerHMM_glimmerT_55772-T1
Valid prediction for Augustus_model.g36967.t1
Valid prediction for HiQ_model.g36962.t1
Couldn't classify 116759, 116902
Couldn't classify 118825, 118888
Sorry, prediction pasa_asmbl_35059.p1 fails validation.
(CGC)	 AT	116759-116902	GT	AGG
(GAA)	 AG	117116-117145	GT	AGG
(CTG)	 AG	117689-117805	GT	AGG
(GTG)	 AG	117907-117953	GT	GCG
(GCC)	 AG	118036-118187	GT	AGG
(GTC)	 AG	118279-118383	GT	TGG
(GTT)	 AG	118520-118715	GT	AGG
(GAG)	 AG	118825-118888	GA	ACG
-recovered pasa_asmbl_35059.p1, internal, 117116, 117145
-recovered pasa_asmbl_35059.p1, internal, 117689, 117805
-recovered pasa_asmbl_35059.p1, internal, 117907, 117953
-recovered pasa_asmbl_35059.p1, internal, 118036, 118187
-recovered pasa_asmbl_35059.p1, internal, 118279, 118383
-recovered pasa_asmbl_35059.p1, internal, 118520, 118715
Valid prediction for snap_scaffold_26-snap.1332-T1
Valid prediction for GlimmerHMM_glimmerT_55788-T1
Couldn't classify 75726, 76031
Sorry, prediction pasa_asmbl_35056.p1 fails validation.
(TTA)	 GT	75726-76031	GT	AGG
(GCT)	 AG	76131-76325	GT	TGG
(CAA)	 AG	76645-76700	GT	AAG
(GGG)	 AG	76791-76943	GT	AAG
(AGA)	 AG	77095-77295	GT	AGG
(GCA)	 AG	77433-77550	GT	TGG
(GCT)	 AG	77647-77775	GC	GAG
-recovered pasa_asmbl_35056.p1, terminal, 77647, 77775
-recovered pasa_asmbl_35056.p1, internal, 76131, 76325
-recovered pasa_asmbl_35056.p1, internal, 76645, 76700
-recovered pasa_asmbl_35056.p1, internal, 76791, 76943
-recovered pasa_asmbl_35056.p1, internal, 77095, 77295
-recovered pasa_asmbl_35056.p1, internal, 77433, 77550
-recovered pasa_asmbl_35056.p1, internal, 77647, 77775
Valid prediction for GlimmerHMM_glimmerT_55790-T1
Valid prediction for Augustus_model.g36984.t1
Valid prediction for GlimmerHMM_glimmerT_55800-T1
Valid prediction for Augustus_model.g36970.t1
Valid prediction for snap_scaffold_26-snap.1311-T1
Valid prediction for Augustus_model.g36982.t1
Valid prediction for Augustus_model.g36968.t1
Valid prediction for GlimmerHMM_glimmerT_55778-T1
Valid prediction for GlimmerHMM_glimmerT_55775-T1
Valid prediction for GlimmerHMM_glimmerT_55784-T1
Valid prediction for GlimmerHMM_glimmerT_55773-T1
Valid prediction for snap_scaffold_26-snap.1342-T1
Valid prediction for Augustus_model.g36965.t1
Valid prediction for pasa_asmbl_35048.p1
Valid prediction for Augustus_model.g36960.t1
Valid prediction for Augustus_model.g36973.t1
Valid prediction for snap_scaffold_26-snap.1319-T1
Valid prediction for snap_scaffold_26-snap.1316-T1
Valid prediction for pasa_asmbl_35052.p1
Valid prediction for GlimmerHMM_glimmerT_55780-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 GlimmerHMM_glimmerT_55787-T1
Valid prediction for Augustus_model.g36963.t1
Valid prediction for snap_scaffold_26-snap.1335-T1
Valid prediction for snap_scaffold_26-snap.1331-T1
Valid prediction for GlimmerHMM_glimmerT_55799-T1
Couldn't classify 41133, 41171
Sorry, prediction pasa_asmbl_35649.p1 fails validation.
(ATG)	 AC	40630-40758	GT	AGG
(GTG)	 AG	40870-40995	GT	ATG
(ATG)	 AG	41133-41171	GA	AGG
-recovered pasa_asmbl_35649.p1, initial, 40630, 40758
-recovered pasa_asmbl_35649.p1, internal, 40870, 40995
Valid prediction for snap_scaffold_26-snap.1336-T1
Valid prediction for snap_scaffold_26-snap.1341-T1
Valid prediction for GlimmerHMM_glimmerT_55792-T1
Valid prediction for snap_scaffold_26-snap.1343-T1
Valid prediction for GlimmerHMM_glimmerT_55795-T1
Valid prediction for GlimmerHMM_glimmerT_55797-T1
Valid prediction for GlimmerHMM_glimmerT_55786-T1
Valid prediction for snap_scaffold_26-snap.1315-T1
Valid prediction for snap_scaffold_26-snap.1334-T1
Valid prediction for Augustus_model.g36975.t1
Couldn't classify 15947, 16195
Sorry, prediction pasa_asmbl_35657.p1 fails validation.
(CGT)	 AT	15947-16195	GT	AGG
(AAA)	 AG	17129-17255	GT	AGG
(GTC)	 AG	17367-17454	GT	AGG
(TAT)	 AG	17584-17695	GT	CGG
(ATC)	 AG	18754-18912	GT	AGG
(GTT)	 AG	19476-19628	GT	AGG
(ATT)	 AG	19757-19864	GT	AGG
(GTA)	 AG	20006-20173	GT	AGG
(ACA)	 AG	20276-20426	GT	AGG
(CAA)	 AG	20550-20734	GG	GAG
-recovered pasa_asmbl_35657.p1, terminal, 20550, 20734
-recovered pasa_asmbl_35657.p1, internal, 17129, 17255
-recovered pasa_asmbl_35657.p1, internal, 17367, 17454
-recovered pasa_asmbl_35657.p1, internal, 17584, 17695
-recovered pasa_asmbl_35657.p1, internal, 18754, 18912
-recovered pasa_asmbl_35657.p1, internal, 19476, 19628
-recovered pasa_asmbl_35657.p1, internal, 19757, 19864
-recovered pasa_asmbl_35657.p1, internal, 20006, 20173
-recovered pasa_asmbl_35657.p1, internal, 20276, 20426
Valid prediction for HiQ_model.g36981.t1
Valid prediction for snap_scaffold_26-snap.1323-T1
Valid prediction for GlimmerHMM_glimmerT_55785-T1
Valid prediction for snap_scaffold_26-snap.1344-T1
Valid prediction for Augustus_model.g36972.t1
Valid prediction for Augustus_model.g36971.t1
Valid prediction for pasa_asmbl_35641.p1
Valid prediction for CodingQuarry_transcript_40372-T1
Valid prediction for HiQ_model.g36979.t1
Valid prediction for GlimmerHMM_glimmerT_55779-T1
Couldn't classify 31758, 31836
Sorry, prediction pasa_asmbl_35652.p1 fails validation.
(AGG)	 CA	31758-31836	GT	TCG
(CTT)	 AG	31990-32073	GT	CGG
(AAA)	 AG	33043-33100	GT	AGG
(ACT)	 AG	33354-33496	GT	AGG
(TTT)	 AG	33580-33683	GT	TCG
(TAC)	 AG	33775-33888	GT	AGG
(GAT)	 AG	34068-34238	GT	TGG
(GTT)	 AG	34369-34503	GT	AGG
(GAT)	 AG	34588-34611	AC	GAA
-recovered pasa_asmbl_35652.p1, terminal, 34588, 34611
-recovered pasa_asmbl_35652.p1, internal, 31990, 32073
-recovered pasa_asmbl_35652.p1, internal, 33043, 33100
-recovered pasa_asmbl_35652.p1, internal, 33354, 33496
-recovered pasa_asmbl_35652.p1, internal, 33580, 33683
-recovered pasa_asmbl_35652.p1, internal, 33775, 33888
-recovered pasa_asmbl_35652.p1, internal, 34068, 34238
-recovered pasa_asmbl_35652.p1, internal, 34369, 34503
Valid prediction for CodingQuarry_transcript_40375-T1
Valid prediction for Augustus_model.g36977.t1
Valid prediction for GlimmerHMM_glimmerT_55782-T1
Valid prediction for snap_scaffold_26-snap.1314-T1
Valid prediction for snap_scaffold_26-snap.1339-T1
Valid prediction for CodingQuarry_transcript_40378-T1
Valid prediction for Augustus_model.g36983.t1
Couldn't classify 61714, 61861
Couldn't classify 64256, 64270
Sorry, prediction pasa_asmbl_35647.p1 fails validation.
(GAC)	 AG	61714-61861	GT	CGG
(TGG)	 AG	61972-62096	GT	CGG
(GAC)	 AG	62217-62432	GT	GGG
(GAA)	 AG	62543-62646	GT	AGG
(GGA)	 AG	63068-63152	GT	AGG
(GAG)	 AG	63954-64031	GT	TGG
(GGG)	 AG	64256-64270	AC	GGA
-recovered pasa_asmbl_35647.p1, internal, 61714, 61861
-recovered pasa_asmbl_35647.p1, internal, 61972, 62096
-recovered pasa_asmbl_35647.p1, internal, 62217, 62432
-recovered pasa_asmbl_35647.p1, internal, 62543, 62646
-recovered pasa_asmbl_35647.p1, internal, 63068, 63152
-recovered pasa_asmbl_35647.p1, internal, 63954, 64031
Valid prediction for snap_scaffold_26-snap.1337-T1
Valid prediction for snap_scaffold_26-snap.1317-T1
Valid prediction for snap_scaffold_26-snap.1330-T1
Valid prediction for pasa_asmbl_35632.p1
Valid prediction for GlimmerHMM_glimmerT_55776-T1
Valid prediction for GlimmerHMM_glimmerT_55791-T1
Valid prediction for Augustus_model.g36976.t1
Valid prediction for GlimmerHMM_glimmerT_55774-T1
Valid prediction for HiQ_model.g36961.t1
Valid prediction for snap_scaffold_26-snap.1333-T1
Valid prediction for CodingQuarry_transcript_40374-T1
Valid prediction for snap_scaffold_26-snap.1329-T1
Valid prediction for HiQ_model.g36980.t1
Couldn't classify 66111, 66167
Sorry, prediction pasa_asmbl_35646.p2 fails validation.
(TGC)	 GC	66111-66167	GT	TGG
(GTG)	 AG	66373-66487	GT	AGG
(AGC)	 AG	66600-66775	GG	GAG
-recovered pasa_asmbl_35646.p2, terminal, 66600, 66775
-recovered pasa_asmbl_35646.p2, internal, 66373, 66487
Valid prediction for HiQ_model.g36966.t1
Valid prediction for GlimmerHMM_glimmerT_55796-T1
Valid prediction for GlimmerHMM_glimmerT_55777-T1
Valid prediction for HiQ_model.g36969.t1
Valid prediction for snap_scaffold_26-snap.1328-T1
Couldn't classify 42969, 43023
Sorry, prediction pasa_asmbl_35908.p2 fails validation.
(ATG)	 AA	41691-41777	GT	AGG
(GAT)	 AG	42020-42271	GT	CGG
(CAG)	 AG	42377-42532	GT	AGG
(ATG)	 AG	42666-42814	GT	GAG
(TAC)	 AG	42969-43023	AC	GAA
-recovered pasa_asmbl_35908.p2, initial, 41691, 41777
-recovered pasa_asmbl_35908.p2, initial, 42666, 42814
-recovered pasa_asmbl_35908.p2, internal, 42020, 42271
-recovered pasa_asmbl_35908.p2, internal, 42377, 42532
-recovered pasa_asmbl_35908.p2, internal, 42666, 42814
Valid prediction for snap_scaffold_26-snap.1312-T1
Valid prediction for HiQ_model.g36964.t1
Valid prediction for CodingQuarry_transcript_40377-T1
Couldn't classify 43180, 43383
Couldn't classify 45607, 45639
Sorry, prediction pasa_asmbl_35847.p1 fails validation.
(GAG)	 CG	43180-43383	GT	AGG
(GGG)	 AG	43501-43726	GT	GGG
(GCC)	 AG	43837-43949	GT	AGG
(ACT)	 AG	44049-44118	GC	AGG
(GAT)	 AG	44211-44353	GT	TGG
(AAA)	 AG	44490-44680	GT	AGG
(GAT)	 AG	44796-44925	GT	GGG
(CCT)	 AG	45043-45147	GC	AGG
(GTC)	 AG	45261-45343	GT	AGG
(GAT)	 AG	45450-45513	GT	AGG
(ACG)	 AG	45607-45639	AA	CCA
-recovered pasa_asmbl_35847.p1, internal, 43501, 43726
-recovered pasa_asmbl_35847.p1, internal, 43837, 43949
-recovered pasa_asmbl_35847.p1, internal, 44049, 44118
-recovered pasa_asmbl_35847.p1, internal, 44211, 44353
-recovered pasa_asmbl_35847.p1, internal, 44490, 44680
-recovered pasa_asmbl_35847.p1, internal, 44796, 44925
-recovered pasa_asmbl_35847.p1, internal, 45043, 45147
-recovered pasa_asmbl_35847.p1, internal, 45261, 45343
-recovered pasa_asmbl_35847.p1, internal, 45450, 45513
Valid prediction for pasa_asmbl_35630.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 100510, rend_intergenic: 97811  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 125237
-exon list size: 389


building trellis

0.3    
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1.0    
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3.3    
3.6    
3.8    
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4.3    
4.6    
4.9    
5.1    
5.4    
5.6    
5.9    
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6.4    
6.6    
6.9    
7.2    
7.4    
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8.7    
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9.2    
9.5    
9.7    
10.0    
10.2    
10.5    
10.7    
11.0    
11.3    
11.5    
11.8    
12.0    
12.3    
12.5    
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13.3    
13.6    
13.8    
14.1    
14.3    
14.6    
14.8    
15.1    
15.3    
15.6    
15.9    
16.1    
16.4    
16.6    
16.9    
17.1    
17.4    
17.6    
17.9    
18.2    
18.4    
18.7    
18.9    
19.2    
19.4    
19.7    
19.9    
20.2    
20.5    
20.7    
21.0    
21.2    
21.5    
21.7    
22.0    
22.3    
22.5    
22.8    
23.0    
23.3    
23.5    
23.8    
24.0    
24.3    
24.6    
24.8    
25.1    
25.3    
25.6    
25.8    
26.1    
26.3    
26.6    
26.9    
27.1    
27.4    
27.6    
27.9    
28.1    
28.4    
28.6    
28.9    
29.2    
29.4    
29.7    
29.9    
30.2    
30.4    
30.7    
30.9    
31.2    
31.5    
31.7    
32.0    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.3    
35.5    
35.8    
36.1    
36.3    
36.6    
36.8    
37.1    
37.3    
37.6    
37.9    
38.1    
38.4    
38.6    
38.9    
39.1    
39.4    
39.6    
39.9    
40.2    
40.4    
40.7    
40.9    
41.2    
41.4    
41.7    
41.9    
42.2    
42.5    
42.7    
43.0    
43.2    
43.5    
43.7    
44.0    
44.2    
44.5    
44.8    
45.0    
45.3    
45.5    
45.8    
46.0    
46.3    
46.5    
46.8    
47.1    
47.3    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.2    
51.4    
51.7    
51.9    
52.2    
52.4    
52.7    
52.9    
53.2    
53.5    
53.7    
54.0    
54.2    
54.5    
54.7    
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55.2    
55.5    
55.8    
56.0    
56.3    
56.5    
56.8    
57.0    
57.3    
57.5    
57.8    
58.1    
58.3    
58.6    
58.8    
59.1    
59.3    
59.6    
59.8    
60.1    
60.4    
60.6    
60.9    
61.1    
61.4    
61.6    
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62.1    
62.4    
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62.9    
63.2    
63.4    
63.7    
63.9    
64.2    
64.5    
64.7    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.0    
68.3    
68.5    
68.8    
69.1    
69.3    
69.6    
69.8    
70.1    
70.3    
70.6    
70.8    
71.1    
71.4    
71.6    
71.9    
72.1    
72.4    
72.6    
72.9    
73.1    
73.4    
73.7    
73.9    
74.2    
74.4    
74.7    
74.9    
75.2    
75.4    
75.7    
76.0    
76.2    
76.5    
76.7    
77.0    
77.2    
77.5    
77.7    
78.0    
78.3    
78.5    
78.8    
79.0    
79.3    
79.5    
79.8    
80.1    
80.3    
80.6    
80.8    
81.1    
81.3    
81.6    
81.8    
82.1    
82.4    
82.6    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.4    
84.7    
84.9    
85.2    
85.4    
85.7    
85.9    
86.2    
86.4    
86.7    
87.0    
87.2    
87.5    
87.7    
88.0    
88.2    
88.5    
88.7    
89.0    
89.3    
89.5    
89.8    
90.0    
90.3    
90.5    
90.8    
91.0    
91.3    
91.6    
91.8    
92.1    
92.3    
92.6    
92.8    
93.1    
93.4    
93.6    
93.9    
94.1    
94.4    
94.6    
94.9    
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95.4    
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95.9    
96.2    
96.4    
96.7    
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97.2    
97.4    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 100510, rend_intergenic: 97811  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 30 predictions persist after filtering for low support