RepeatModeler Version 2.0.4 =========================== Using output directory = /dev/shm/rModeler.zCND69/RM_20917.MonSep161938092024 Search Engine = rmblast 2.13.0+ Threads = 32 Dependencies: TRF 4.09, RECON , RepeatScout 1.0.6, RepeatMasker 4.1.4 LTR Structural Analysis: Disabled [use -LTRStruct to enable] Random Number Seed: 1726540688 Database = /dev/shm/rModeler.zCND69/GCF_000003225.4_ASM322v1 - Sequences = 8 - Bases = 8358125 Storage Throughput = excellent ( 1092.79 MB/s ) RepeatModeler Round # 1 ======================== Searching for Repeats -- Sampling from the database... - Gathering up to 40000000 bp - Final Sample Size = 8358014 bp ( 8357813 non ambiguous ) - Num Contigs Represented = 8 - Sequence extraction : 00:00:01 (hh:mm:ss) Elapsed Time -- Running RepeatScout on the sequences... - RepeatScout: 00:04:18 (hh:mm:ss) Elapsed Time Round Time: 00:05:19 (hh:mm:ss) Elapsed Time : 41 families discovered. RepeatModeler Round # 2 ======================== Searching for Repeats -- Sampling from the database... - Gathering up to 10000000 bp - Sequence extraction : 00:00:02 (hh:mm:ss) Elapsed Time -- Running TRFMask on the sequence... - TRFMask time 00:00:26 (hh:mm:ss) Elapsed Time -- Masking repeats from the previous rounds... 2296 repeats masked totaling 407875 bp(s). - TE Masking time 00:00:04 (hh:mm:ss) Elapsed Time -- Sample Stats: Sample Size 8358014 bp Num Contigs Represented = 8 Non ambiguous bp: Initial: 8357813 bp After Masking: 7867082 bp Masked: 5.87 % -- Input Database Coverage: 8358014 bp out of 8358125 bp ( 100.00 % ) Sampling Time: 00:00:33 (hh:mm:ss) Elapsed Time Running all-by-other comparisons... - Total Comparisons = 22791 Comparison Time: 00:07:30 (hh:mm:ss) Elapsed Time, 37811 HSPs Collected Number of families returned by RECON: 964 Round Time: 00:08:41 (hh:mm:ss) Elapsed Time : 1 families discovered. RepeatScout/RECON discovery complete: 42 families found Classification Time: 00:00:49 (hh:mm:ss) Elapsed Time Program Time: 00:14:49 (hh:mm:ss) Elapsed Time