# Cas-Analyzer after Barcode Splitter

**URL:** <https://help.galaxyproject.org/t/cas-analyzer-after-barcode-splitter/5865>\
**Category:** Uncategorized\
**Created:** [April 25, 2021, 4:29pm UTC](https://help.galaxyproject.org/t/cas-analyzer-after-barcode-splitter/5865 "2021-04-25T16:29:12Z")\
**Posts on this page:** 1\
**Page:** 1

<div class="post-metadata">

**Author:** ![Woofung](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/woofung/32/2362_2.png) [@Woofung](https://help.galaxyproject.org/u/Woofung)\
**Post date:** [April 25, 2021, 4:29pm UTC](https://help.galaxyproject.org/t/cas-analyzer-after-barcode-splitter/5865/1 "2021-04-25T16:29:12Z")

</div>

Hi all,

I used Barcode Splitter to test separate my paired-end Fastq file, and I have unique barcodes on both 5’- and 3’- ends.

I found that for a barcode pair, for example, BC-Forword1, I have 50000 sequence reads in total.  
In its reverse, BC-Reverse1, I also have 50000 reads.

What when I analyze these these files with Cas Analyzer or PE-Analyzer, the total reads it takes into calculation is only ardound half, like 20000 reads, but not 50000 reads.

Anyone know what’s wrong with my operation?