Hi,
Has anyone here analysed the small RNA sequencing data that produced by solexa? I found that many sequences has some untemplated nucleotides in its 3' end after removing the 3' adaptor. For example,
hsa-let-7a-1
TGGGATGAGGTAGTAGGTTGTATAGTTTTAGGGTCACACCCACCACTGGGAGATAACTATACAATCTACTGTCTTTCCTA
TGAGGTAGTAGGTTGTATAGTTgc
TGAGGTAGTAGGTTGTATAGTTaa
TGAGGTAGTAGGTTGTATAGTTagg
TGAGGTAGTAGGTTGTATAGTTatc
TGAGGTAGTAGGTTGTATAGTTgtt
TGAGGTAGTAGGTTGTATAGTTaaa
TGAGGTAGTAGGTTGTATAGTTagt
TGAGGTAGTAGGTTGTATAGTTca
TGAGGTAGTAGGTTGTATAGTTa
TGAGGTAGTAGGTTGTATAGTTggt
TGAGGTAGTAGGTTGTATAGTTg
TGAGGTAGTAGGTTGTATAGTTatcttatt
Lower case characters refer to the nucleotides that sequenced by Solexa
which can't be mapped to the genome.
Do anyone knows why this happens? Can I use these sequences with some
untemplated 3' nucleotide?
Leo
Has anyone here analysed the small RNA sequencing data that produced by solexa? I found that many sequences has some untemplated nucleotides in its 3' end after removing the 3' adaptor. For example,
hsa-let-7a-1
TGGGATGAGGTAGTAGGTTGTATAGTTTTAGGGTCACACCCACCACTGGGAGATAACTATACAATCTACTGTCTTTCCTA
TGAGGTAGTAGGTTGTATAGTTgc
TGAGGTAGTAGGTTGTATAGTTaa
TGAGGTAGTAGGTTGTATAGTTagg
TGAGGTAGTAGGTTGTATAGTTatc
TGAGGTAGTAGGTTGTATAGTTgtt
TGAGGTAGTAGGTTGTATAGTTaaa
TGAGGTAGTAGGTTGTATAGTTagt
TGAGGTAGTAGGTTGTATAGTTca
TGAGGTAGTAGGTTGTATAGTTa
TGAGGTAGTAGGTTGTATAGTTggt
TGAGGTAGTAGGTTGTATAGTTg
TGAGGTAGTAGGTTGTATAGTTatcttatt
Lower case characters refer to the nucleotides that sequenced by Solexa
which can't be mapped to the genome.
Do anyone knows why this happens? Can I use these sequences with some
untemplated 3' nucleotide?
Leo
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