FastQC results for Decision on Further analysis

Question

[haiying.kong]

We have whole exome sequencing data for 16 FFPE samples. I ran FastQC on the data to decide if FFPE samples are also usable for our study.

Per_base_N_content and Kmer_Content are very poor. Overrepresented_sequences is pretty poor as well.

Could any one please tell me if

1. Data with this quality is not worth of further analysis?
2. FFPE samples are not good for WES? We should stop sequencing FFPE samples?

Per_base_sequence_quality  Per_tile_sequence_quality  Per_sequence_quality_scores  Per_base_sequence_content  Per_sequence_GC_content  Per_base_N_content  Sequence_Length_Distribution  Sequence_Duplication_Levels  Overrepresented_sequences  Adapter_Content  Kmer_Content
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                -1
1                          1                          1                            0                          1                        -1                  1                             1                            -1                         1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                -1
1                          1                          1                            0                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                -1
1                          1                          1                            1                          1                        -1                  1                             1                            -1                         1                0
1                          1                          1                            1                          1                        -1                  1                             1                            0                          1                0
1                          1                          1                            0                          1                        -1                  1                             1                            -1                         1                -1

[Biomonika (Noolean)]

You have to link the results of FastQC directly or provide screenshots in order to get reasonable answers. "Poor" is not descriptive enough.