Sample total_reads paired_total paired_aligned_none paired_aligned_one paired_aligned_multi overall_alignment_rate paired_aligned_mate_none_halved 10--1E7-1-bismark 7850998 7850998 3547222 1638196 2665580 54.82 3547222 1A1-4-bismark 7854657 7854657 3465171 1679352 2710134 55.88 3465171 1A10-2-bismark 8293735 8293735 3761182 1696277 2836276 54.65 3761182 1A12-3-bismark 8418698 8418698 3615740 1843081 2959877 57.05 3615740 1A3-5-bismark 9409014 9409014 4222826 1860562 3325626 55.12 4222826 1A5-6-bismark 8416550 8416550 3601214 1759076 3056260 57.21 3601214 1A6-7-bismark 7333647 7333647 7316231 6946 10470 0.24 7316231 1A8-8-bismark 10610806 10610806 4493255 1855237 4262314 57.65 4493255 1B1-10-bismark 8059367 8059367 3551779 1708443 2799145 55.93 3551779 1B10-9-bismark 11376595 11376595 4892379 2190055 4294161 57.0 4892379 1B2-11-bismark 10155511 10155511 4628531 2093936 3433044 54.42 4628531 1B4-12-bismark 9048752 9048752 9014955 13697 20100 0.37 9014955 1B5-13-bismark 8193745 8193745 3771298 1776723 2645724 53.97 3771298 1C6-14-bismark 7388244 7388244 3048719 1501020 2838505 58.74 3048719 1C8-15-bismark 8819378 8819378 3844670 1889344 3085364 56.41 3844670 1C9-16-bismark 8132088 8132088 3651550 1794664 2685874 55.1 3651550 1D3-17-bismark 7867154 7867154 3180229 1726116 2960809 59.58 3180229 1D7-18-bismark 7345043 7345043 3135580 1601148 2608315 57.31 3135580 1D8-19-bismark 8018704 8018704 8002120 6502 10082 0.21 8002120 1D9-20-bismark 9092285 9092285 4031953 1696431 3363901 55.66 4031953 1F1-21-bismark 9355850 9355850 3873734 2077009 3405107 58.6 3873734 1F5-22-bismark 9167718 9167718 4034043 1939685 3193990 56.0 4034043 1F7-23-bismark 7175688 7175688 3018779 1586515 2570394 57.93 3018779 1F9-24-bismark 7579782 7579782 7561684 6960 11138 0.24 7561684 1G4-25-bismark 6899329 6899329 6741687 54031 103611 2.28 6741687 1G5-26-bismark 8535056 8535056 3919564 1534926 3080566 54.08 3919564 1H11-27-bismark 7594091 7594091 3581537 1405557 2606997 52.84 3581537 1H2-28-bismark 8838460 8838460 8806943 10787 20730 0.36 8806943 1H3-29-bismark 7846448 7846448 3448280 1733599 2664569 56.05 3448280 1H5-30-bismark 8179401 8179401 8149237 10425 19739 0.37 8149237 1H6-31-bismark 7778639 7778639 3801380 1523438 2453821 51.13 3801380 1H9-32-bismark 8258719 8258719 8236063 8700 13956 0.27 8236063 2A3-33-bismark 6762725 6762725 3069040 1434365 2259320 54.62 3069040 2C2-34-bismark 8503471 8503471 3775791 1687685 3039995 55.6 3775791 2D1-35-bismark 7630157 7630157 7603975 9657 16525 0.34 7603975 2D2-36-bismark 6008014 6008014 2729072 1284630 1994312 54.58 2729072 2G2-37-bismark 8726002 8726002 3900667 1908629 2916706 55.3 3900667 2H3-38-bismark 6420759 6420759 6406180 5548 9031 0.23 6406180 39--2E2-39-bismark 7762629 7762629 7734987 10027 17615 0.36 7734987 6--1E3-40-bismark 9709339 9709339 9682453 9786 17100 0.28 9682453