#### Analyses

**Global Analyses** screen is designed to offer a very easy and intuitive way to access to **base, base-pair** and **base-pair step** analysis, either for the **global set** of trajectories stored in the database or for just a **selection** of interest (from the browse page).

Bullets with different colors represent: **bases** (red), **base-pairs** (green) and **base-pair steps** (blue) in one-letter code, defined below:

- A: Adenine
- C: Cytosine
- G: Guanine
- T: Thymine
- U: Uracil
- R: Purine (Adenine and Guanine)
- Y: Pyrimidine (Cytosine, Thymine, Uracil)
- N: All the previous

Each bullet show together with the **base/base-pair/base-pair step** code the **number of appearances** of it in the selected set of sequences.

**Clicking on one of the bullets** will open a new section at the bottom of the page with all the analyses stored in the database for the particular code. As the analyses are defined in a **hierarchical way**, user must select the desired analysis at each step, until finding the final values. **Final results** are shown in different ways, depending on the analysis (histograms, average values, 2D plots, etc.).

As an example, if a user is interested in the *Slide* helical parameter values for the particular **CG base-pair step**, the steps to follow are described in the next figure: After clicking on the **CG bullet**, select **Curves analysis**, **helical parameters**, and finally **Slide parameter**.

The values and plots for the final results depend on the type of analysis. Typically, a **distribution** is shown using the **MD simulation time-averaged values** for all the particular groups included in the system corresponding to the ones selected (e.g. CG base-pair step). When available, a vertical line is plotted together with the distribution histogram showing the **experimental average value** for the particular analysis (see Experimental Analyses section).

In analysis where resulting values are not just averages, as could be **percentages** or values per **atom pairs**, plots are represented accordingly (**bar plots** for percentages, **boxplots** for atom pairs).

Next to the generated plot, a table is shown containing all the values together with their corresponding **simulation id**, **group** (base/base-pair/base-pair step) and **group number** to be identified inside the particular MD simulation sequence.