RepeatModeler Version 2.0.4
===========================
Using output directory = /dev/shm/rModeler.GSjWjd/RM_14922.SunJul71234232024
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: 1720380862
Database = /dev/shm/rModeler.GSjWjd/GCF_016767815.1_ASM1676781v1   - Sequences = 6
  - Bases = 26336737
Storage Throughput = excellent ( 1042.60 MB/s )


RepeatModeler Round # 1
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 40000000 bp
   - Final Sample Size = 26336637 bp ( 26336637 non ambiguous )
   - Num Contigs Represented = 6
   - Sequence extraction : 00:00:04 (hh:mm:ss) Elapsed Time
 -- Running RepeatScout on the sequences...
   - RepeatScout: 00:08:09 (hh:mm:ss) Elapsed Time
Round Time: 00:10:30 (hh:mm:ss) Elapsed Time : 76 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 00:00:10 (hh:mm:ss) Elapsed Time
 -- Masking repeats from the previous rounds...
       1314 repeats masked totaling 681510 bp(s).
   - TE Masking time 00:00:05 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 10020646 bp
       Num Contigs Represented = 6
       Non ambiguous bp:
             Initial: 10020646 bp
             After Masking: 9312225 bp
             Masked: 7.07 % 
 -- Input Database Coverage: 10020646 bp out of 26336737 bp ( 38.05 % )
Sampling Time: 00:00:18 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 31375
Comparison Time: 00:04:17 (hh:mm:ss) Elapsed Time, 2005 HSPs Collected
Number of families returned by RECON: 683
Round Time: 00:04:42 (hh:mm:ss) Elapsed Time : 1 families discovered.


RepeatModeler Round # 3
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 30000000 bp
   - Sequence extraction : 00:00:02 (hh:mm:ss) Elapsed Time
 -- Running TRFMask on the sequence...
   - TRFMask time 00:00:16 (hh:mm:ss) Elapsed Time
 -- Masking repeats from the previous rounds...
       2114 repeats masked totaling 1045187 bp(s).
   - TE Masking time 00:00:08 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 16315958 bp
       Num Contigs Represented = 6
       Non ambiguous bp:
             Initial: 16315958 bp
             After Masking: 15223699 bp
             Masked: 6.69 % 
 -- Input Database Coverage: 26336604 bp out of 26336737 bp ( 100.00 % )
Sampling Time: 00:00:28 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 84255
Comparison Time: 00:09:04 (hh:mm:ss) Elapsed Time, 4153 HSPs Collected
Number of families returned by RECON: 1305
Round Time: 00:09:53 (hh:mm:ss) Elapsed Time : 6 families discovered.

RepeatScout/RECON discovery complete: 83 families found


Classification Time: 00:07:13 (hh:mm:ss) Elapsed Time


Program Time: 00:32:18 (hh:mm:ss) Elapsed Time