-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1690

-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: +)Couldn't classify 2017, 2027
Sorry, prediction GeneMark_model.109622_t fails validation.
(ATG)	 TG	1194-1207	GT	AGG
(AAG)	 AG	1282-1299	GT	GAG
(GAG)	 AG	1333-1353	GT	ACG
(AGG)	 AG	1388-1399	GT	GAG
(GAG)	 AG	1433-1453	GT	ACG
(GAG)	 AG	1491-1502	GT	GAG
(GAG)	 AG	1536-1556	GT	ACG
(GAG)	 AG	1598-1696	GT	GAG
(GAG)	 AG	1737-1994	GT	CTG
(GGA)	 AG	2017-2027	GT	GGG
-recovered GeneMark_model.109622_t, initial, 1194, 1207
-recovered GeneMark_model.109622_t, internal, 1282, 1299
-recovered GeneMark_model.109622_t, internal, 1333, 1353
-recovered GeneMark_model.109622_t, internal, 1388, 1399
-recovered GeneMark_model.109622_t, internal, 1433, 1453
-recovered GeneMark_model.109622_t, internal, 1491, 1502
-recovered GeneMark_model.109622_t, internal, 1536, 1556
-recovered GeneMark_model.109622_t, internal, 1598, 1696
-recovered GeneMark_model.109622_t, internal, 1737, 1994
-recovered GeneMark_model.109622_t, internal, 2017, 2027
Valid prediction for snap_scaffold_1690-snap.1-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: -)Couldn't classify 1692, 1853
Sorry, prediction GeneMark_model.109621_t fails validation.
(ATG)	 GC	911-936	GT	GAG
(TGG)	 AG	971-982	GT	GAG
(GGG)	 AG	1012-1034	GT	GAG
(ATG)	 AG	1101-1126	GT	CTG
(CTG)	 AG	1692-1853	GT	AGG
-recovered GeneMark_model.109621_t, initial, 911, 936
-recovered GeneMark_model.109621_t, initial, 1101, 1126
-recovered GeneMark_model.109621_t, internal, 971, 982
-recovered GeneMark_model.109621_t, internal, 1012, 1034
-recovered GeneMark_model.109621_t, internal, 1101, 1126
-recovered GeneMark_model.109621_t, internal, 1692, 1853
Couldn't classify 57, 288
Couldn't classify 1670, 1853
Sorry, prediction snap_scaffold_1690-snap.2-T1 fails validation.
(GCT)	 AG	57-288	GT	AGG
(GTC)	 AG	797-944	GT	GGG
(ATG)	 AG	1101-1203	GT	AGG
(TAT)	 AG	1670-1853	GT	AGG
add_exon() Sorry, snap_scaffold_1690-snap.2-T1 1101-1203-initial-1 is invalid.
-recovered snap_scaffold_1690-snap.2-T1, initial, 1101, 1203
-recovered snap_scaffold_1690-snap.2-T1, internal, 57, 288
-recovered snap_scaffold_1690-snap.2-T1, internal, 797, 944
-recovered snap_scaffold_1690-snap.2-T1, internal, 1101, 1203
-recovered snap_scaffold_1690-snap.2-T1, internal, 1670, 1853
Couldn't classify 95, 288
Sorry, prediction Augustus_model.g41787.t1 fails validation.
(AGG)	 AG	95-288	GT	AGG
(GTC)	 AG	797-944	GT	GGG
(ATG)	 AG	1101-1203	GT	AGG
(TAT)	 AG	1670-1853	GT	AGG
(GTG)	 AG	1988-1993	CA	AAC
add_exon() Sorry, Augustus_model.g41787.t1 1101-1203-initial-1 is invalid.
-recovered Augustus_model.g41787.t1, initial, 1101, 1203
-recovered Augustus_model.g41787.t1, terminal, 1988, 1993
-recovered Augustus_model.g41787.t1, internal, 95, 288
-recovered Augustus_model.g41787.t1, internal, 797, 944
-recovered Augustus_model.g41787.t1, internal, 1101, 1203
-recovered Augustus_model.g41787.t1, internal, 1670, 1853
Couldn't classify 95, 288
Sorry, prediction GlimmerHMM_glimmerT_62777-T1 fails validation.
(AGG)	 AG	95-288	GT	AGG
(GTC)	 AG	797-944	GT	GGG
(ATG)	 AG	1101-1203	GT	AGG
(TAT)	 AG	1670-1922	CA	AAC
add_exon() Sorry, GlimmerHMM_glimmerT_62777-T1 1101-1203-initial-1 is invalid.
-recovered GlimmerHMM_glimmerT_62777-T1, initial, 1101, 1203
-recovered GlimmerHMM_glimmerT_62777-T1, terminal, 1670, 1922
-recovered GlimmerHMM_glimmerT_62777-T1, internal, 95, 288
-recovered GlimmerHMM_glimmerT_62777-T1, internal, 797, 944
-recovered GlimmerHMM_glimmerT_62777-T1, internal, 1101, 1203

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 1476, rend_intergenic: 196  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 2048
-exon list size: 48


building trellis

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-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 1476, rend_intergenic: 196  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support