RepeatModeler Version 2.0.4 =========================== Using output directory = /scratch/tmp/rModeler.EalznQ/RM_1522166.FriDec60931172024 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: 1733506277 Database = /scratch/tmp/rModeler.EalznQ/GCF_030566675.1_ASM3056667v1 - Sequences = 1 - Bases = 4516435 Storage Throughput = excellent ( 1457.33 MB/s ) RepeatModeler Round # 1 ======================== Searching for Repeats -- Sampling from the database... - Gathering up to 40000000 bp - Final Sample Size = 4516320 bp ( 4516320 non ambiguous ) - Num Contigs Represented = 1 - Sequence extraction : 00:00:00 (hh:mm:ss) Elapsed Time -- Running RepeatScout on the sequences... - RepeatScout: 00:00:48 (hh:mm:ss) Elapsed Time Round Time: 00:01:03 (hh:mm:ss) Elapsed Time : 13 families discovered. RepeatModeler Round # 2 ======================== Searching for Repeats -- Sampling from the database... - Gathering up to 10000000 bp - Sequence extraction : 00:00:01 (hh:mm:ss) Elapsed Time -- Running TRFMask on the sequence... - TRFMask time 00:00:04 (hh:mm:ss) Elapsed Time -- Masking repeats from the previous rounds... 526 repeats masked totaling 86755 bp(s). - TE Masking time 00:00:01 (hh:mm:ss) Elapsed Time -- Sample Stats: Sample Size 4516320 bp Num Contigs Represented = 1 Non ambiguous bp: Initial: 4516320 bp After Masking: 4416548 bp Masked: 2.21 % -- Input Database Coverage: 4516320 bp out of 4516435 bp ( 100.00 % ) Sampling Time: 00:00:07 (hh:mm:ss) Elapsed Time Running all-by-other comparisons... - Total Comparisons = 6328 Comparison Time: 00:02:52 (hh:mm:ss) Elapsed Time, 7757 HSPs Collected Number of families returned by RECON: 865 Round Time: 00:03:10 (hh:mm:ss) Elapsed Time : 3 families discovered. RepeatScout/RECON discovery complete: 16 families found Classification Time: 00:00:04 (hh:mm:ss) Elapsed Time Program Time: 00:04:17 (hh:mm:ss) Elapsed Time