Added ANI table

Author: rknx

_optionals/03-extra_tools.md

@@ -24,6 +24,8 @@ The source code for **PyANI** is available at
 The documentation for basic usage is available 
 [here](https://github.com/widdowquinn/pyani/blob/master/README_v_0_2_x.md){: target="_blank"}.
 
+The first stage of PyANI is 
+
 **PyANI** v2 is available in Hipergator, but has to be loaded.
 The dependencies, `mummer` and `blast+` will be loaded together with `pyani`.
 
@@ -83,8 +85,28 @@ ANIm_alignment_lengths.tab   ANIm_percentage_identity.tab
 
 You can now transfer `ANIm_percentage_identity.png` 
 to your computer to view the heatmap.
-For numeric values, you can use `ANIm_percentage_identity.tab` table.
 
 <img src="/fig/ANIm_percentage_identity.png" height="500px">
 
-Based on ANI, the unknown strain seems to be *X. hortorum pv. gardneri*.
+You can also get numeric ANI values from the `ANIm_percentage_identity.tab` file.
+
+~~~
+$ awk 'NR==1{print "-"$0; next}{for (i=2; i<=NF; i++) {$i=substr($i,1,5)}; print $0}' ani8/ANIm_percentage_identity.tab | column -t
+~~~
+{: .language-bash}
+
+~~~
+-             Xpopuli  Xhgardneri  Xhcynarae  Xhhederae  Xhvitians  Xhunknown  Xhcarotae  Xhtaraxaci  Xhpelargonii
+Xpopuli       1.0      0.913       0.913      0.912      0.912      0.913      0.913      0.912       0.913
+Xhgardneri    0.913    1.0         0.993      0.960      0.982      0.999      0.961      0.974       0.958
+Xhcynarae     0.913    0.993       1.0        0.960      0.984      0.993      0.961      0.975       0.958
+Xhhederae     0.912    0.960       0.960      1.0        0.960      0.960      0.965      0.955       0.961
+Xhvitians     0.912    0.982       0.984      0.960      1.0        0.982      0.961      0.976       0.958
+Xhunknown     0.913    0.999       0.993      0.960      0.982      1.0        0.961      0.974       0.958
+Xhcarotae     0.913    0.961       0.961      0.965      0.961      0.961      1.0        0.956       0.961
+Xhtaraxaci    0.912    0.974       0.975      0.955      0.976      0.974      0.956      1.0         0.954
+Xhpelargonii  0.913    0.958       0.958      0.961      0.958      0.958      0.961      0.954       1.0
+~~~
+{: .output}
+
+Based on ANI, the unknown strain seems closest to *X. hortorum pv. gardneri*.