Dear all,
We have conducted a transciptome sequencing projects on Zebrafish using SOLiD 4 PE protocal (50X35). After analysis using Bioscope 1.3.1 WTA pipeline, we found that among 80% mapped reads there are only 31% pairs located in same chromosomes, and more than 45% paired ends located in different chromosomes. Is this rate normal, or something was going wrong in our expriment and analysis?
Best wishes
Chen
We have conducted a transciptome sequencing projects on Zebrafish using SOLiD 4 PE protocal (50X35). After analysis using Bioscope 1.3.1 WTA pipeline, we found that among 80% mapped reads there are only 31% pairs located in same chromosomes, and more than 45% paired ends located in different chromosomes. Is this rate normal, or something was going wrong in our expriment and analysis?
Best wishes
Chen
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