Unconfigured Ad

Collapse
X
 
  • Time
  • Show
Clear All
new posts
  • Name_less_
    Member
    • Oct 2014
    • 12

    #1

    Pair-end bowtie questions

    Hello everyone!!
    I'm new in the work with sequencing, more specific Chip-seq data set. I have pair-end data and mapped it with bowtie2. I have read the SAM format specifications but don't understand column 7:

    "RNEXT: Reference sequence name of the primary alignment of the NEXT read in the template"

    Someone can explain me whats mean this? What means that the column possesses "=" or "*"?

    Greetings!!
  • Brian Bushnell
    Super Moderator
    • Jan 2014
    • 2709

    #2
    * means the other read did not align. = means both are on the same reference sequence. Generally that's not an important field since it's just repeating information you can get by looking at the other read.

    Comment

    Latest Articles

    Collapse

    • kinpict.com
      Reply to 16S/ITS Profiling vs. Shotgun Metagenomics: What Changes in Your Workflow?
      by kinpict.com
      The part about this topic feels surprisingly grounded, and the details on the page is the bit that made me slow down. I’d keep <a href="https://kinpict.com/">ai family photo generator</a> bookmarked for later.
      Today, 06:37 PM
    • SEQadmin2
      16S/ITS Profiling vs. Shotgun Metagenomics: What Changes in Your Workflow?
      by SEQadmin2





      NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification,...
      10-30-2026, 06:46 AM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by SEQadmin2, 11-12-2026, 07:59 AM
    0 responses
    26 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 11-05-2026, 09:25 AM
    0 responses
    35 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 11-03-2026, 11:54 AM
    2 responses
    56 views
    0 reactions
    Last Post kinpict.com  
    Started by SEQadmin2, 10-28-2026, 09:57 AM
    0 responses
    175 views
    0 reactions
    Last Post SEQadmin2  
    Working...