Comparison of Bowtie1 and Bowtie2

1. More accurate for reads,bowtie2 lengths greater than 50bp, while reads,bowtie1 less than 50bp are more accurate and faster

2.bowtie2 supported reads length has no upper limit, of course reads length in 50~1000bp appropriate, and BOWTIE1 support reads length of up to about 1000BP

3.bowtie2 's contrast supports gap, while BOWTIE1 does not support

4.bowtie2 can support local alignment, while BOWTIE1 does not support

The comparison support for 5.BOWTIE2 has n in the reference sequence, and Bowtie1 does not support

Comparison of Bowtie1 and Bowtie2