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  • gene coder
    Member
    • Jul 2011
    • 18

    #1

    Are public CG reads SE reads or PE reads?

    I was running
    Code:
    head -20
    on the file ftp://ftp2.completegenomics.com/YRI_...01_013.tsv.bz2. The output suggests that the reads are single-end. Or are they paired-end?

    Output:

    Code:
    #ASSEMBLY_ID    NA19240-L2-200-37-ASM
    #BATCH_FILE_NUMBER      13
    #BATCH_OFFSET   360000000
    #FIELD_SIZE     476288
    #FORMAT_VERSION 2.0
    #GENERATED_AT   2011-Oct-08 20:47:05.612947
    #GENERATED_BY   exportTools
    #LANE   L01
    #LIBRARY        GS00700-CLS_G07
    #SAMPLE GS00706-DNA_C01
    #SLIDE  GS27651-FS3
    #SOFTWARE_VERSION       2.0.0.26
    #TYPE   READS
    
    >flags  reads   scores
    5       CTCAAAATCCTAAGCCAAAAGAACAAGGCATCACCTGTTTGCAGAATTGTATATCTAGAAAACCCCCCAT  8:9;;+/378788876;<<<;;:;:()/085280.2847856164:99;;9;;8818888497347;979
    4       AATTCTCTGCTTCCAGTGTGGCCCACCAAAAGACTTCTTCCTGCAGGCTGACTTCATAACTTCAGACATA  899;;)72)6784766:;<<::98/888988620.377776656&:6:;;08;:888579446,475915
    5       ACTTCTCAGTAAAGTAGGGTTTAGTAAAAGGACTTCAGTGCAGGGCGCCACAGTTTAAGCCAAAAAAGAA  9::;668-57778875:<<;;;+;;999693680.358626+3*677;;:<:<:87988878679;;)::
    0       AGCAGAGGAGACCTGAATTCATTTCCTACTTTCAATGCTGTGTGTACTTAGACCACCCACTGTTTTTGAG  88:;:83845788776;:<;%<*+)895588880.*7&7840(62(:8;-<68;88888))22/4::9:9
    0       GGAGGGGCCAAGGCCGGCAGAGTGCCTCAGGAGTTGAGTTCGAGCGGGCCAACACGGTAAAACCTCTGGT  81:;676787-*)416;8;3;;:;:88188..*0%0827.7130()%&'$-;32864828542567:999

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