RepeatModeler Version 2.0.4 =========================== Using output directory = /scratch/tmp/rModeler.Pl4huX/RM_1517758.FriDec60928002024 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: 1733506080 Database = /scratch/tmp/rModeler.Pl4huX/GCF_000277735.2_ASM27773v2 - Sequences = 1 - Bases = 4411709 Storage Throughput = excellent ( 1491.90 MB/s ) RepeatModeler Round # 1 ======================== Searching for Repeats -- Sampling from the database... - Gathering up to 40000000 bp - Final Sample Size = 4411655 bp ( 4411655 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: 00:01:01 (hh:mm:ss) Elapsed Time : 9 families discovered. RepeatModeler Round # 2 ======================== Searching for Repeats -- Sampling from the database... - Gathering up to 10000000 bp - Sequence extraction : 00:00:00 (hh:mm:ss) Elapsed Time -- Running TRFMask on the sequence... - TRFMask time 00:00:08 (hh:mm:ss) Elapsed Time -- Masking repeats from the previous rounds... 345 repeats masked totaling 75170 bp(s). - TE Masking time 00:00:01 (hh:mm:ss) Elapsed Time -- Sample Stats: Sample Size 4411655 bp Num Contigs Represented = 1 Non ambiguous bp: Initial: 4411655 bp After Masking: 4312816 bp Masked: 2.24 % -- Input Database Coverage: 4411655 bp out of 4411709 bp ( 100.00 % ) Sampling Time: 00:00:09 (hh:mm:ss) Elapsed Time Running all-by-other comparisons... - Total Comparisons = 6105 Comparison Time: 00:04:03 (hh:mm:ss) Elapsed Time, 11909 HSPs Collected Number of families returned by RECON: 630 Round Time: 00:05:58 (hh:mm:ss) Elapsed Time : 3 families discovered. RepeatScout/RECON discovery complete: 12 families found Classification Time: 00:00:22 (hh:mm:ss) Elapsed Time Program Time: 00:07:21 (hh:mm:ss) Elapsed Time