Hi,
I have mapped some RNA-seq reads back to genome with Tophat and found that a lot of reads in the output of Tophat have a MAPping Value of 255. As says in the SAM specification file , a value 255 indicates that the mapping quality is not available. I wonder that in what case a read will be allocated a MAPQ value of 255 ? Does it mean that this read don't align the genome well?
I hope I have made the question clear to you all. Any reply will be appreciated.Thanks in advance!
feixue1039
I have mapped some RNA-seq reads back to genome with Tophat and found that a lot of reads in the output of Tophat have a MAPping Value of 255. As says in the SAM specification file , a value 255 indicates that the mapping quality is not available. I wonder that in what case a read will be allocated a MAPQ value of 255 ? Does it mean that this read don't align the genome well?
I hope I have made the question clear to you all. Any reply will be appreciated.Thanks in advance!
feixue1039
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