RepeatModeler Version 2.0.4
===========================
Using output directory = /dev/shm/rModeler.vFDYNl/RM_175684.ThuSep120649432024
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: 1726148983
Database = /dev/shm/rModeler.vFDYNl/GCA_001650105.1_ASM165010v1   - Sequences = 140
  - Bases = 6878190
  - N50 = 216676
  - Contig Histogram:
  Size(bp)                                                        Count
  -----------------------------------------------------------------------
  558361-598171 |                                                   [ 1 ]
  518552-558361 |                                                   [  ]
  478742-518551 |                                                   [ 1 ]
  438933-478742 |                                                   [ 1 ]
  399124-438933 |                                                   [  ]
  359314-399123 |                                                   [  ]
  319505-359314 |                                                   [  ]
  279695-319504 |                                                   [ 1 ]
  239886-279695 |*                                                  [ 3 ]
  200077-239886 |**                                                 [ 5 ]
  160267-200076 |*                                                  [ 3 ]
  120458-160267 |**                                                 [ 5 ]
  80648-120457  |**                                                 [ 6 ]
  40839-80648   |****                                               [ 9 ]
  1030-40839    |************************************************** [ 105 ]

Storage Throughput = good ( 961.14 MB/s )


RepeatModeler Round # 1
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 40000000 bp
   - Final Sample Size = 6878094 bp ( 6878094 non ambiguous )
   - Num Contigs Represented = 140
   - Sequence extraction : 00:00:01 (hh:mm:ss) Elapsed Time
 -- Running RepeatScout on the sequences...
   - RepeatScout: 00:01:23 (hh:mm:ss) Elapsed Time
Round Time: 00:01:41 (hh:mm:ss) Elapsed Time : 1 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 00:00:09 (hh:mm:ss) Elapsed Time
 -- Masking repeats from the previous rounds...
       0 repeats masked totaling 0 bp(s).
   - TE Masking time 00:00:02 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 6878094 bp
       Num Contigs Represented = 140
       Non ambiguous bp:
             Initial: 6878094 bp
             After Masking: 6861684 bp
             Masked: 0.24 % 
 -- Input Database Coverage: 6878094 bp out of 6878190 bp ( 100.00 % )
Sampling Time: 00:00:12 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 37950
Comparison Time: 00:03:17 (hh:mm:ss) Elapsed Time, 1010 HSPs Collected
Number of families returned by RECON: 270
Round Time: 01:10:23 (hh:mm:ss) Elapsed Time : 1 families discovered.

RepeatScout/RECON discovery complete: 2 families found


Classification Time: 00:01:55 (hh:mm:ss) Elapsed Time


Program Time: 01:13:59 (hh:mm:ss) Elapsed Time