Selecting reads and reference

To start the read mapping:

        Toolbox | Resequencing Analysis (Image resequencing) | Map Reads to Reference (Image read_mapping_16_n_p)

In this dialog, select the sequences or sequence lists containing the sequencing data. Note that the reference sequences should be selected in the next step. Please note that reads longer than 100,000 bases are not supported.

When the sequences are selected, click Next, and you will see the dialog shown in figure 21.11.

Image referenceassembly_step2
Figure 21.11: Specifying the reference sequences and masking.

At the top you select one or more reference sequences by clicking the Browse and select element (Image browse) button. You can select either single sequences, a list of sequences or a sequence track as reference. Note that single reference sequences longer than 2gb ( $ 2 \cdot 10^9$ bases) are not supported.