Input data and parameters 

Samples (with groups)

RTx430_leaves_dr_r1_alignment (RTx430_leaves_dr) /kb/module/work/tmp/download_ccb06cd9-2e96-47ff-83eb-6645eb0241fb/accepted_hits_stats
RTx430_leaves_ww_r2_alignment (RTx430_leaves_ww) /kb/module/work/tmp/download_595f4c76-70b3-404b-89cc-40e5efb11593/accepted_hits_stats
RTx430_leaves_dr_r2_alignment (RTx430_leaves_dr) /kb/module/work/tmp/download_7028c533-4455-4fa9-8040-8453ada5ef60/accepted_hits_stats
RTx430_roots_dr_r2_alignment (RTx430_roots_dr) /kb/module/work/tmp/download_20d8780c-5478-496f-a106-3829c8ac0acf/accepted_hits_stats
RTx430_roots_dr_r3_alignment (RTx430_roots_dr) /kb/module/work/tmp/download_ee6d965a-a56b-4d9e-b875-0031d81055ef/accepted_hits_stats
RTx430_leaves_dr_r3_alignment (RTx430_leaves_dr) /kb/module/work/tmp/download_f542f2ac-59f4-4b9f-86a4-6cae7753852f/accepted_hits_stats
RTx430_roots_ww_r1_alignment (RTx430_roots_ww) /kb/module/work/tmp/download_008f5835-4252-438a-bcea-e5b9d9835a56/accepted_hits_stats
RTx430_roots_dr_r1_alignment (RTx430_roots_dr) /kb/module/work/tmp/download_c8f2715a-8e91-4860-a205-8da02d857fdd/accepted_hits_stats
RTx430_leaves_ww_r3_alignment (RTx430_leaves_ww) /kb/module/work/tmp/download_1ccbebfd-4849-4f50-ba29-071042d0cf2e/accepted_hits_stats
RTx430_roots_ww_r2_alignment (RTx430_roots_ww) /kb/module/work/tmp/download_0f03a9a6-8747-4ab8-a77c-32bcd570d9a4/accepted_hits_stats
RTx430_roots_ww_r3_alignment (RTx430_roots_ww) /kb/module/work/tmp/download_d1517e40-bc3b-4aa9-af20-64a63455a99e/accepted_hits_stats
RTx430_leaves_ww_r1_alignment (RTx430_leaves_ww) /kb/module/work/tmp/download_c04375d1-784e-4168-880e-8ba35f71322a/accepted_hits_stats

Summary 

Globals

Number of samples 12
Number of groups 4
Total number of mapped reads 278,695,431
Mean samples coverage 49.08
Mean samples GC-content 50.16
Mean samples mapping quality 58.33

Sample statistics

Sample Group Coverage mean Coverage std GC percentage Mapping quality mean Insert size median
RTx430_leaves_ww_r1_alignment RTx430_leaves_ww 39.9397 167.1664 51.01 58.4433 0.0
RTx430_leaves_ww_r2_alignment RTx430_leaves_ww 49.0428 208.4873 51.05 58.4333 0.0
RTx430_leaves_ww_r3_alignment RTx430_leaves_ww 47.9169 212.9621 49.81 58.4923 0.0
RTx430_leaves_dr_r1_alignment RTx430_leaves_dr 60.8869 247.0771 50.27 58.3161 0.0
RTx430_leaves_dr_r2_alignment RTx430_leaves_dr 44.2077 187.5947 51.56 58.3947 0.0
RTx430_leaves_dr_r3_alignment RTx430_leaves_dr 43.2793 157.3586 50.02 58.3926 0.0
RTx430_roots_ww_r1_alignment RTx430_roots_ww 44.6549 141.0518 51.61 58.3026 0.0
RTx430_roots_ww_r2_alignment RTx430_roots_ww 53.2054 161.1282 50.41 58.2783 0.0
RTx430_roots_ww_r3_alignment RTx430_roots_ww 38.2393 109.3632 50.19 58.3707 0.0
RTx430_roots_dr_r1_alignment RTx430_roots_dr 57.572 179.6431 48.54 58.1623 0.0
RTx430_roots_dr_r2_alignment RTx430_roots_dr 65.3765 212.8652 49.28 58.1492 0.0
RTx430_roots_dr_r3_alignment RTx430_roots_dr 44.6807 128.8683 48.2 58.2726 0.0

PCA 

Coverage Across Reference 

Coverage Histogram (0 - 62457X) 

Global Coverage Histogram 

Genome Fraction Coverage 

Duplication Rate Histogram 

Mapped reads GC-content 

Mapped Reads Clipping Profile 

Mapped Reads GC-content Distribution 

Mapping Quality Across Reference 

Mapping Quality Histogram 

Insert Size Across Reference 

Insert Size Histogram