RepeatModeler Version 2.0.4
===========================
Using output directory = /dev/shm/rModeler.Zputa7/RM_22819.SunJul71241322024
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: 1720381291
Database = /dev/shm/rModeler.Zputa7/GCF_014636115.1_ASM1463611v1   - Sequences = 8
  - Bases = 12128633
Storage Throughput = excellent ( 1051.64 MB/s )


RepeatModeler Round # 1
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 40000000 bp
   - Final Sample Size = 12128521 bp ( 12128521 non ambiguous )
   - Num Contigs Represented = 8
   - Sequence extraction : 00:00:01 (hh:mm:ss) Elapsed Time
 -- Running RepeatScout on the sequences...
   - RepeatScout: 00:06:24 (hh:mm:ss) Elapsed Time
Round Time: 00:06:57 (hh:mm:ss) Elapsed Time : 12 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 00:00:14 (hh:mm:ss) Elapsed Time
 -- Masking repeats from the previous rounds...
       292 repeats masked totaling 78392 bp(s).
   - TE Masking time 00:00:02 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 10018042 bp
       Num Contigs Represented = 8
       Non ambiguous bp:
             Initial: 10018042 bp
             After Masking: 9835231 bp
             Masked: 1.82 % 
 -- Input Database Coverage: 10018042 bp out of 12128633 bp ( 82.60 % )
Sampling Time: 00:00:19 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 32131
Comparison Time: 00:04:41 (hh:mm:ss) Elapsed Time, 2688 HSPs Collected
Number of families returned by RECON: 768
Round Time: 00:05:21 (hh:mm:ss) Elapsed Time : 1 families discovered.
   - Increasing sample size to include end piece now = 32128633


RepeatModeler Round # 3
========================
Searching for Repeats
 -- Sampling from the database...
   - Gathering up to 32128633 bp
   - Sequence extraction : 00:00:01 (hh:mm:ss) Elapsed Time
 -- Running TRFMask on the sequence...
   - TRFMask time 00:00:03 (hh:mm:ss) Elapsed Time
 -- Masking repeats from the previous rounds...
       57 repeats masked totaling 20251 bp(s).
   - TE Masking time 00:00:01 (hh:mm:ss) Elapsed Time
 -- Sample Stats:
       Sample Size 2110467 bp
       Num Contigs Represented = 8
       Non ambiguous bp:
             Initial: 2110467 bp
             After Masking: 2071124 bp
             Masked: 1.86 % 
 -- Input Database Coverage: 12128509 bp out of 12128633 bp ( 100.00 % )
Sampling Time: 00:00:06 (hh:mm:ss) Elapsed Time
Running all-by-other comparisons...
  - Total Comparisons = 1378
Comparison Time: 00:00:35 (hh:mm:ss) Elapsed Time, 84 HSPs Collected
Number of families returned by RECON: 56
Round Time: 00:00:42 (hh:mm:ss) Elapsed Time : 0 families discovered.

RepeatScout/RECON discovery complete: 13 families found


Classification Time: 00:00:43 (hh:mm:ss) Elapsed Time


Program Time: 00:13:43 (hh:mm:ss) Elapsed Time