RepeatModeler Version 2.0.4
===========================
Using output directory = /dev/shm/rModeler.mQHTVo/RM_29259.SunJul71255142024
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: 1720382113
Database = /dev/shm/rModeler.mQHTVo/GCF_020647795.1_ASM2064779v1   - Sequences = 7
  - Bases = 37300646
Storage Throughput = excellent ( 1039.53 MB/s )


RepeatModeler Round # 1
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 40000000 bp
   - Final Sample Size = 37300556 bp ( 37300556 non ambiguous )
   - Num Contigs Represented = 7
   - Sequence extraction : 00:00:07 (hh:mm:ss) Elapsed Time
 -- Running RepeatScout on the sequences...
   - RepeatScout: 00:16:00 (hh:mm:ss) Elapsed Time
Round Time: 02:11:32 (hh:mm:ss) Elapsed Time : 19 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 00:00:38 (hh:mm:ss) Elapsed Time
 -- Masking repeats from the previous rounds...
       226 repeats masked totaling 84548 bp(s).
   - TE Masking time 00:00:28 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 10001929 bp
       Num Contigs Represented = 7
       Non ambiguous bp:
             Initial: 10001929 bp
             After Masking: 9867321 bp
             Masked: 1.35 % 
 -- Input Database Coverage: 10001929 bp out of 37300646 bp ( 26.81 % )
Sampling Time: 00:01:09 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 32131
Comparison Time: 00:32:53 (hh:mm:ss) Elapsed Time, 1918 HSPs Collected
Number of families returned by RECON: 575
Round Time: 00:36:20 (hh:mm:ss) Elapsed Time : 2 families discovered.


RepeatModeler Round # 3
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 30000000 bp
   - Sequence extraction : 00:00:05 (hh:mm:ss) Elapsed Time
 -- Running TRFMask on the sequence...
   - TRFMask time 00:01:42 (hh:mm:ss) Elapsed Time
 -- Masking repeats from the previous rounds...
       782 repeats masked totaling 385804 bp(s).
   - TE Masking time 00:00:45 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 27298547 bp
       Num Contigs Represented = 7
       Non ambiguous bp:
             Initial: 27298547 bp
             After Masking: 26805289 bp
             Masked: 1.81 % 
 -- Input Database Coverage: 37300476 bp out of 37300646 bp ( 100.00 % )
Sampling Time: 00:02:34 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 232903
Comparison Time: 01:48:32 (hh:mm:ss) Elapsed Time, 10716 HSPs Collected
Number of families returned by RECON: 2711
Round Time: 11:42:15 (hh:mm:ss) Elapsed Time : 4 families discovered.

RepeatScout/RECON discovery complete: 25 families found


Classification Time: 00:08:48 (hh:mm:ss) Elapsed Time


Program Time: 14:38:55 (hh:mm:ss) Elapsed Time