Sample K006433_1_lane_gembs
===========================

Mapping Stats (Reads)
---------------------

+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Concept                                     |Total Reads                                 |%                                           +============================================+============================================+===========================================+
|Sequenced Reads                             |2137663576                                  |100.00 %                                   |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|General Reads                               |2028486957                                  |94.89 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Reads in Control sequences                  |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Reads under conversion control              |21503241                                    |1.01 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Reads over conversion control               |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Unmapped reads                              |87673378                                    |4.10 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Bisulfite_reads C2T                         |1016592641                                  |47.56 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Bisulfite_reads G2A                         |1033397557                                  |48.34 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+

Uniqueness (Fragments)
----------------------

+--------------------------------------------+-------------------------------------------+
|Concept                                     |Value                                      |
+============================================+===========================================+
|Unique Fragments                            |1547346582                                 |
+--------------------------------------------+-------------------------------------------+
|Average Unique                              |75.48 %                                    |
+--------------------------------------------+-------------------------------------------+

Mapping Stats (Bases)
---------------------

+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Concept                                     |Total Bases                                 |%                                          |
+============================================+============================================+===========================================+
|Base Counts Overall A                       |90472299298                                 |46.56 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall C                       |40716826289                                 |20.95 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall G                       |5054148667                                  |2.60 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall T                       |55909787682                                 |28.77 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall N                       |2159066785                                  |1.11 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+

Mapping Quality Histogram
-------------------------

.. image:: K006433_1_lane_gembs_mapq.png

Bisulfite Conversion Rate
-------------------------

+--------------------------------------------+-------------------------------------------+
|Bisulfite Conversion Type                   |Conversion Rate                            |
+============================================+===========================================+
|Under Conversion Rate                       |0.902995105532784                          |
+--------------------------------------------+-------------------------------------------+
|Over Conversion Rate                        |NA                                         |
+--------------------------------------------+-------------------------------------------+

Sample K006433_1_lane_gembs Lane HPC17.Bisulfite-Seq.DNA_Methylation.JGAX00000006929_12
---------------------------------------------------------------------------------------

Mapping Stats (Reads)
^^^^^^^^^^^^^^^^^^^^^

+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Concept                                     |Total Reads                                 |%                                           |P1 Reads                                    |%                                           |P2 Reads                                    |%                                          |
+============================================+============================================+============================================+============================================+============================================+============================================+===========================================+
|Sequenced Reads                             |2137663576                                  |100.00 %                                    |2137663576                                  |100.00 %                                    |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|General Reads                               |2028486957                                  |94.89 %                                     |2028486957                                  |94.89 %                                     |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Reads in Control sequences                  |0                                           |0.00 %                                      |0                                           |0.00 %                                      |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Reads under conversion control              |21503241                                    |1.01 %                                      |21503241                                    |1.01 %                                      |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Reads over conversion control               |0                                           |0.00 %                                      |0                                           |0.00 %                                      |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Unmapped reads                              |87673378                                    |4.10 %                                      |87673378                                    |4.10 %                                      |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Bisulfite_reads C2T                         |1016592641                                  |47.56 %                                     |1016592641                                  |47.56 %                                     |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Bisulfite_reads G2A                         |1033397557                                  |48.34 %                                     |1033397557                                  |48.34 %                                     |0                                           |0.00 %                                     |
+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+

Uniqueness (Fragments)
^^^^^^^^^^^^^^^^^^^^^^

+--------------------------------------------+-------------------------------------------+
|Concept                                     |Value                                      |
+============================================+===========================================+
|Unique Fragments                            |1547346582                                 |
+--------------------------------------------+-------------------------------------------+
|Average Unique                              |75.48 %                                    |
+--------------------------------------------+-------------------------------------------+

Mapping Stats (Bases)
^^^^^^^^^^^^^^^^^^^^^

+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Concept                                     |Total Bases                                 |%                                           |P1 Bases                                    |%                                           |P2 Bases                                    |%                                          |
+============================================+============================================+============================================+============================================+============================================+============================================+===========================================+
|Base Counts Overall A                       |90472299298                                 |46.56 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall C                       |40716826289                                 |20.95 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall G                       |5054148667                                  |2.60 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall T                       |55909787682                                 |28.77 %                                    |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+
|Base Counts Overall N                       |2159066785                                  |1.11 %                                     |
+--------------------------------------------+--------------------------------------------+-------------------------------------------+

Bisulfite Conversion Rate
^^^^^^^^^^^^^^^^^^^^^^^^^

+--------------------------------------------+-------------------------------------------+
|Bisulfite Conversion Type                   |Conversion Rate                            |
+============================================+===========================================+
|Under Conversion Rate                       |0.902995105532784                          |
+--------------------------------------------+-------------------------------------------+
|Over Conversion Rate                        |NA                                         |
+--------------------------------------------+-------------------------------------------+

Mapping Quality Histogram
^^^^^^^^^^^^^^^^^^^^^^^^^

.. image:: HPC17.Bisulfite-Seq.DNA_Methylation.JGAX00000006929_12_mapq.png

Read Length
^^^^^^^^^^^

+--------------------------------------------+-------------------------------------------+
|Read Length                                 |Reads                                      |
+============================================+===========================================+
|65                                          |616911213                                  |
+--------------------------------------------+-------------------------------------------+
|100                                         |1520752363                                 |
+--------------------------------------------+-------------------------------------------+

