Tue May 31 09:09:50 2016

 Command: sortmerna --ref /home/jona1883/software/American-Gut/data/AG/BLOOM.fasta,/home/jona1883/software/American-Gut/ipynb/primary-processing/ag-May-31-2016/02-filtered/observed-blooms/sortmerna_picked_otus/BLOOM -e 1.0 --aligned /home/jona1883/software/American-Gut/ipynb/primary-processing/ag-May-31-2016/02-filtered/observed-blooms/sortmerna_picked_otus/sortmerna_otus -a 28 --id 0.97 --coverage 0.97 --log --otu_map --reads /tmp/SortMeRNAExactMatchFilteruEPh2G.fasta --de_novo_otu -v --best 1 --fastx 
 Process pid = 29586
 Parameters summary:
    Index: /home/jona1883/software/American-Gut/ipynb/primary-processing/ag-May-31-2016/02-filtered/observed-blooms/sortmerna_picked_otus/BLOOM
     Seed length = 18
     Pass 1 = 18, Pass 2 = 9, Pass 3 = 3
     Gumbel lambda = 0.588849
     Gumbel K = 0.323663
     Minimal SW score based on E-value = 48
    Number of seeds = 2
    Edges = 4 (as integer)
    SW match = 2
    SW mismatch = -3
    SW gap open penalty = 5
    SW gap extend penalty = 2
    SW ambiguous nucleotide = -3
    SQ tags are not output
    Number of threads = 28
    Reads file = /tmp/SortMeRNAExactMatchFilteruEPh2G.fasta

 Results:
    Total reads = 32676008
    Total reads for de novo clustering = 24008126
    Total reads passing E-value threshold = 25897874 (79.26%)
    Total reads failing E-value threshold = 6778134 (20.74%)
    Minimum read length = 76
    Maximum read length = 151
    Mean read length = 146
 By database:
    /home/jona1883/software/American-Gut/data/AG/BLOOM.fasta		79.26%
 Total reads passing %id and %coverage thresholds = 1889748
 Total OTUs = 10