-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_9495214-9672593

-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_27731-T1
Valid prediction for snap_scaffold_11-snap.2143-T1
Valid prediction for snap_scaffold_11-snap.2162-T1
Valid prediction for snap_scaffold_11-snap.2163-T1
Valid prediction for snap_scaffold_11-snap.2139-T1
Valid prediction for GlimmerHMM_glimmerT_27732-T1
Valid prediction for GlimmerHMM_glimmerT_27734-T1
Valid prediction for GlimmerHMM_glimmerT_27733-T1
Valid prediction for GlimmerHMM_glimmerT_27705-T1
Valid prediction for GlimmerHMM_glimmerT_27717-T1
Valid prediction for GlimmerHMM_glimmerT_27715-T1
Valid prediction for snap_scaffold_11-snap.2160-T1
Valid prediction for GlimmerHMM_glimmerT_27720-T1
Valid prediction for snap_scaffold_11-snap.2175-T1
Valid prediction for GlimmerHMM_glimmerT_27711-T1
Valid prediction for snap_scaffold_11-snap.2153-T1
Valid prediction for snap_scaffold_11-snap.2170-T1
Valid prediction for GlimmerHMM_glimmerT_27707-T1
Valid prediction for snap_scaffold_11-snap.2150-T1
Couldn't classify 7381, 7680
Sorry, prediction pasa_asmbl_5888.p1 fails validation.
(ATG)	 TG	7381-7680	AG	CCA
Valid prediction for GlimmerHMM_glimmerT_27709-T1
Couldn't classify 15123, 15620
Sorry, prediction pasa_asmbl_6935.p1 fails validation.
(AAT)	 CG	15123-15620	TA	AAT
Valid prediction for Augustus_model.g18346.t1
Valid prediction for snap_scaffold_11-snap.2145-T1
Valid prediction for snap_scaffold_11-snap.2182-T1
Valid prediction for Augustus_model.g18353.t1
Valid prediction for snap_scaffold_11-snap.2164-T1
Valid prediction for Augustus_model.g18349.t1
Valid prediction for snap_scaffold_11-snap.2173-T1
Valid prediction for snap_scaffold_11-snap.2141-T1
Couldn't classify 7777, 7959
Sorry, prediction pasa_asmbl_5889.p1 fails validation.
(GGG)	 TG	7777-7959	GT	AGG
(CTG)	 AG	8638-8752	GT	CGG
(AGT)	 AG	9368-9485	GT	AGG
(GGA)	 AG	9625-9816	GT	AGG
(GAT)	 AG	9908-10098	GT	TGG
(AGG)	 AG	10194-11530	CA	AGC
-recovered pasa_asmbl_5889.p1, terminal, 10194, 11530
-recovered pasa_asmbl_5889.p1, internal, 8638, 8752
-recovered pasa_asmbl_5889.p1, internal, 9368, 9485
-recovered pasa_asmbl_5889.p1, internal, 9625, 9816
-recovered pasa_asmbl_5889.p1, internal, 9908, 10098
Valid prediction for GlimmerHMM_glimmerT_27713-T1
Valid prediction for GlimmerHMM_glimmerT_27723-T1
Valid prediction for snap_scaffold_11-snap.2158-T1
Valid prediction for GlimmerHMM_glimmerT_27722-T1
Valid prediction for Augustus_model.g18343.t1
Valid prediction for snap_scaffold_11-snap.2157-T1
Valid prediction for snap_scaffold_11-snap.2177-T1
Valid prediction for GlimmerHMM_glimmerT_27726-T1
Valid prediction for Augustus_model.g18342.t1
Valid prediction for snap_scaffold_11-snap.2166-T1
Valid prediction for snap_scaffold_11-snap.2148-T1
Valid prediction for snap_scaffold_11-snap.2161-T1
Valid prediction for Augustus_model.g18354.t1
Valid prediction for snap_scaffold_11-snap.2181-T1
Valid prediction for Augustus_model.g18351.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_27706-T1
Couldn't classify 17052, 17168
Couldn't classify 20553, 20684
Sorry, prediction pasa_asmbl_6942.p2 fails validation.
(ACA)	 TC	17052-17168	GT	AGG
(TTG)	 AG	17259-17378	GT	AGG
(TGG)	 AG	17457-17588	GT	TGG
(GCC)	 AG	17694-17858	GT	GGG
(AAC)	 AG	17946-18065	GT	AGG
(GGA)	 AG	18500-18634	GT	AGG
(GAT)	 AG	18948-19141	GT	GGG
(ATT)	 AG	19653-19685	GT	AGG
(GGA)	 AG	20170-20308	GT	AGG
(GTG)	 AG	20553-20684	GC	AGG
-recovered pasa_asmbl_6942.p2, internal, 17259, 17378
-recovered pasa_asmbl_6942.p2, internal, 17457, 17588
-recovered pasa_asmbl_6942.p2, internal, 17694, 17858
-recovered pasa_asmbl_6942.p2, internal, 17946, 18065
-recovered pasa_asmbl_6942.p2, internal, 18500, 18634
-recovered pasa_asmbl_6942.p2, internal, 18948, 19141
-recovered pasa_asmbl_6942.p2, internal, 19653, 19685
-recovered pasa_asmbl_6942.p2, internal, 20170, 20308
-recovered pasa_asmbl_6942.p2, internal, 20553, 20684
Valid prediction for snap_scaffold_11-snap.2142-T1
Valid prediction for snap_scaffold_11-snap.2169-T1
Valid prediction for Augustus_model.g18350.t1
Valid prediction for snap_scaffold_11-snap.2149-T1
Valid prediction for GlimmerHMM_glimmerT_27710-T1
Valid prediction for GlimmerHMM_glimmerT_27729-T1
Couldn't classify 152793, 152872
Couldn't classify 153479, 153572
Sorry, prediction pasa_asmbl_6938.p1 fails validation.
(CAC)	 TC	152793-152872	GT	ATG
(GTT)	 AG	152975-153092	GT	AGG
(GTG)	 AG	153282-153370	GT	AGG
(GTG)	 AG	153479-153572	GG	GAG
-recovered pasa_asmbl_6938.p1, internal, 152975, 153092
-recovered pasa_asmbl_6938.p1, internal, 153282, 153370
Valid prediction for HiQ_model.g18345.t1
Valid prediction for snap_scaffold_11-snap.2180-T1
Valid prediction for Augustus_model.g18347.t1
Valid prediction for snap_scaffold_11-snap.2168-T1
Valid prediction for pasa_asmbl_6939.p1
Couldn't classify 13833, 14013
Sorry, prediction pasa_asmbl_6945.p1 fails validation.
(ATG)	 GC	10874-10952	GT	AGG
(GGA)	 AG	13656-13713	GT	AGG
(GGA)	 AG	13833-14013	AC	GGA
-recovered pasa_asmbl_6945.p1, initial, 10874, 10952
-recovered pasa_asmbl_6945.p1, internal, 13656, 13713
Valid prediction for snap_scaffold_11-snap.2165-T1
Valid prediction for snap_scaffold_11-snap.2154-T1
Valid prediction for snap_scaffold_11-snap.2159-T1
Valid prediction for snap_scaffold_11-snap.2155-T1
Valid prediction for snap_scaffold_11-snap.2176-T1
Valid prediction for GlimmerHMM_glimmerT_27725-T1
Valid prediction for snap_scaffold_11-snap.2152-T1
Valid prediction for GlimmerHMM_glimmerT_27728-T1
Valid prediction for GlimmerHMM_glimmerT_27719-T1
Valid prediction for HiQ_model.g18348.t1
Valid prediction for snap_scaffold_11-snap.2167-T1
Valid prediction for GlimmerHMM_glimmerT_27708-T1
Valid prediction for Augustus_model.g18352.t1
Valid prediction for GlimmerHMM_glimmerT_27735-T1
Valid prediction for snap_scaffold_11-snap.2183-T1
Valid prediction for snap_scaffold_11-snap.2144-T1
Valid prediction for GlimmerHMM_glimmerT_27721-T1
Valid prediction for GlimmerHMM_glimmerT_27727-T1
Valid prediction for GlimmerHMM_glimmerT_27730-T1
Valid prediction for snap_scaffold_11-snap.2178-T1
Valid prediction for snap_scaffold_11-snap.2146-T1
Valid prediction for snap_scaffold_11-snap.2179-T1
Valid prediction for snap_scaffold_11-snap.2172-T1
Valid prediction for Augustus_model.g18358.t1
Valid prediction for snap_scaffold_11-snap.2147-T1
Valid prediction for GlimmerHMM_glimmerT_27736-T1
Valid prediction for Augustus_model.g18357.t1
Valid prediction for GlimmerHMM_glimmerT_27712-T1
Valid prediction for snap_scaffold_11-snap.2151-T1
Couldn't classify 156197, 156222
Sorry, prediction pasa_asmbl_6936.p1 fails validation.
(CTC)	 TC	156197-156222	GT	CGG
(GAA)	 AG	156516-156602	GT	TGG
(GTG)	 AG	157351-157457	GT	AGG
(CGT)	 AG	157703-157777	GT	TGG
(ACT)	 AG	158885-159075	GT	AGG
(AAG)	 AG	159826-159891	GT	ATG
(GTG)	 AG	160465-160558	GT	TCG
(GCA)	 AG	160696-160805	GG	AGG
-recovered pasa_asmbl_6936.p1, terminal, 160696, 160805
-recovered pasa_asmbl_6936.p1, internal, 156516, 156602
-recovered pasa_asmbl_6936.p1, internal, 157351, 157457
-recovered pasa_asmbl_6936.p1, internal, 157703, 157777
-recovered pasa_asmbl_6936.p1, internal, 158885, 159075
-recovered pasa_asmbl_6936.p1, internal, 159826, 159891
-recovered pasa_asmbl_6936.p1, internal, 160465, 160558
Valid prediction for snap_scaffold_11-snap.2140-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_27714-T1
Valid prediction for snap_scaffold_11-snap.2171-T1
Valid prediction for snap_scaffold_11-snap.2156-T1
Valid prediction for Augustus_model.g18355.t1
Valid prediction for GlimmerHMM_glimmerT_27724-T1
Valid prediction for GlimmerHMM_glimmerT_27716-T1
Valid prediction for snap_scaffold_11-snap.2174-T1
Valid prediction for Augustus_model.g18344.t1
Valid prediction for Augustus_model.g18356.t1
Valid prediction for snap_scaffold_11-snap.2138-T1
Valid prediction for GlimmerHMM_glimmerT_27718-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11530, rend_intergenic: 7581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19208, rend_intergenic: 15071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32652, rend_intergenic: 22835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44847, rend_intergenic: 40462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50852, rend_intergenic: 47530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65815, rend_intergenic: 60313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66378, rend_intergenic: 66186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76849, rend_intergenic: 68061  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86199, rend_intergenic: 79666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88704, rend_intergenic: 86373  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102684, rend_intergenic: 88781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105273, rend_intergenic: 103260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119963, rend_intergenic: 110847  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124921, rend_intergenic: 122150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129334, rend_intergenic: 125956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134518, rend_intergenic: 129586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139005, rend_intergenic: 134626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146379, rend_intergenic: 144536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148524, rend_intergenic: 147967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151484, rend_intergenic: 148799  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163942, rend_intergenic: 159794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176300, rend_intergenic: 169427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 177380
-exon list size: 464


building trellis

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-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 11530, rend_intergenic: 7581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19208, rend_intergenic: 15071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32652, rend_intergenic: 22835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44847, rend_intergenic: 40462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50852, rend_intergenic: 47530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65815, rend_intergenic: 60313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66378, rend_intergenic: 66186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76849, rend_intergenic: 68061  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86199, rend_intergenic: 79666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88704, rend_intergenic: 86373  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102684, rend_intergenic: 88781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105273, rend_intergenic: 103260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119963, rend_intergenic: 110847  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124921, rend_intergenic: 122150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129334, rend_intergenic: 125956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134518, rend_intergenic: 129586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139005, rend_intergenic: 134626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146379, rend_intergenic: 144536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148524, rend_intergenic: 147967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151484, rend_intergenic: 148799  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163942, rend_intergenic: 159794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176300, rend_intergenic: 169427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support