RepeatModeler Version 2.0.4
===========================
Using output directory = /dev/shm/rModeler.6zdNtG/RM_295292.ThuSep120607562024
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: 1726146476
Database = /dev/shm/rModeler.6zdNtG/GCA_001650075.1_ASM165007v1   - Sequences = 250
  - Bases = 6800559
  - N50 = 245347
  - Contig Histogram:
  Size(bp)                                                        Count
  -----------------------------------------------------------------------
  506764-542955 |                                                   [ 3 ]
  470574-506764 |                                                   [  ]
  434384-470574 |                                                   [ 2 ]
  398193-434383 |                                                   [  ]
  362003-398193 |                                                   [  ]
  325813-362003 |                                                   [ 1 ]
  289623-325813 |                                                   [  ]
  253432-289622 |                                                   [ 1 ]
  217242-253432 |                                                   [ 3 ]
  181052-217242 |                                                   [ 1 ]
  144862-181052 |                                                   [ 2 ]
  108671-144861 |**                                                 [ 9 ]
  72481-108671  |*                                                  [ 5 ]
  36291-72481   |*                                                  [ 5 ]
  101-36291     |*************************************************  [ 218 ]

Storage Throughput = excellent ( 1264.15 MB/s )


RepeatModeler Round # 1
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 40000000 bp
   - Final Sample Size = 6800507 bp ( 6800507 non ambiguous )
   - Num Contigs Represented = 250
   - Sequence extraction : 00:00:01 (hh:mm:ss) Elapsed Time
 -- Running RepeatScout on the sequences...
   - RepeatScout: 00:01:56 (hh:mm:ss) Elapsed Time
Round Time: 00:02:16 (hh:mm:ss) Elapsed Time : 3 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...
       90 repeats masked totaling 21652 bp(s).
   - TE Masking time 00:00:01 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 6800507 bp
       Num Contigs Represented = 250
       Non ambiguous bp:
             Initial: 6800507 bp
             After Masking: 6760082 bp
             Masked: 0.59 % 
 -- Input Database Coverage: 6800507 bp out of 6800559 bp ( 100.00 % )
Sampling Time: 00:00:12 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 76636
Comparison Time: 00:03:39 (hh:mm:ss) Elapsed Time, 1602 HSPs Collected
Number of families returned by RECON: 361
Round Time: 00:04:05 (hh:mm:ss) Elapsed Time : 1 families discovered.

RepeatScout/RECON discovery complete: 4 families found


Classification Time: 00:00:09 (hh:mm:ss) Elapsed Time


Program Time: 00:06:30 (hh:mm:ss) Elapsed Time