From: BisQC: an operational pipeline for multiplexed bisulfite sequencing
Lane | Sample | Raw-input | Alignment-input | Unique aligned | % Unique aligned | 1X COV (# of CpGs) | 5X COV (# of CpGs) | 10X COV (# of CpGs) | Mean COV |
---|---|---|---|---|---|---|---|---|---|
1 | B02 | 33 064 288 | 29 063 371 | 20 255 109 | 61.26 | 2 567 012 | 1 918 910 | 1 530 535 | 29.79 |
D07 | 22 138 393 | 17 645 024 | 11 939 603 | 53.93 | 2 062 303 | 1 389 067 | 1 058 733 | 20.73 | |
E08 | 27 604 275 | 24 916 571 | 17 486 794 | 63.35 | 2 566 936 | 1 802 043 | 1 381 774 | 27.65 | |
G12 | 34 606 411 | 30 925 499 | 20 902 905 | 60.4 | 2 714 010 | 2 109 753 | 1 713 530 | 28.79 | |
2 | B02 | 35 305 177 | 29 236 310 | 20 364 338 | 57.68 | 2 567 438 | 1 917 970 | 1 532 194 | 29.99 |
D07 | 13 678 215 | 10 201 505 | 6 940 443 | 50.74 | 1 870 722 | 1 147 585 | 781 304 | 13.52 | |
E08 | 29 182 244 | 24 797 995 | 17 379 826 | 59.56 | 2 564 006 | 1 795 028 | 1 374 048 | 27.53 | |
G12 | 35 675 527 | 30 029 857 | 20 267 725 | 56.81 | 2 706 283 | 2 091 749 | 1 691 941 | 27.99 | |
3 | B02 | 29 189 642 | 23 540 460 | 16 370 890 | 56.08 | 2 506 260 | 1 806 333 | 1 393 509 | 24.61 |
D07 | 11 434 385 | 8 327 312 | 5 657 862 | 49.48 | 1 798 599 | 1 043 794 | 667 799 | 11.41 | |
E08 | 29 178 605 | 24 189 204 | 16 950 994 | 58.09 | 2 555 851 | 1 770 930 | 1 349 999 | 26.88 | |
G12 | 32077566 | 26 281 812 | 17 702 331 | 55.18 | 2 672 851 | 2 022 443 | 1 596 346 | 24.60 | |
4 | B02 | 26 075 222 | 21 021 219 | 14 594 149 | 55.97 | 2 471 169 | 1 740 262 | 1 313 326 | 22.17 |
D07 | 15 915 092 | 11 619 325 | 7 851 241 | 49.33 | 1 923 817 | 1 191 959 | 832 127 | 14.57 | |
E08 | 22 095 982 | 18 227 193 | 12 761 292 | 57.75 | 2 456 950 | 1 611 115 | 1 170 745 | 20.94 | |
G12 | 27 526 678 | 22 602 833 | 15 277 998 | 55.5 | 2 629 556 | 1 938 216 | 1 484 737 | 21.55 | |
5 | B02 | 20 542 906 | 15 122 524 | 10 444 122 | 50.84 | 2 368 596 | 1 533 603 | 1 268 102 | 16.48 |
D07 | 9 506 379 | 6 102 317 | 4 110 762 | 43.24 | 1 716 465 | 876 141 | 498 166 | 8.65 | |
E08 | 18 652 337 | 14 027 421 | 9 789 610 | 52.48 | 2 359 943 | 1 437 779 | 995 396 | 16.70 | |
G12 | 23 046 688 | 17 307 795 | 11 663 692 | 50.6 | 2 559 434 | 1 764 888 | 1 268 102 | 16.86 | |
6 | B02 | - | - | - | - | - | - | - | - |
D07 | - | - | - | - | - | - | - | - | |
E08 | - | - | - | - | - | - | - | - | |
G12 | 147 537 115 | 99 359 722 | 66 638 301 | 45.17 | 2 988 624 | 2 499 292 | 2 279 640 | 82.78 | |
7 | B02 | 20 450 646 | 15 984 580 | 11 124 200 | 54.4 | 2 395 119 | 1 596 904 | 1 139 946 | 17.50 |
D07 | 8 334 712 | 5 747 869 | 3 899 752 | 46.79 | 1 671 805 | 859 372 | 476 623 | 8.47 | |
E08 | 19 548 711 | 15 949 864 | 11 173 920 | 57.16 | 2 415 658 | 1 540 771 | 1 093 107 | 18.75 | |
G12 | 21 853 857 | 17 549 017 | 11 807 885 | 51.13 | 2 562 616 | 1 799 635 | 1 299 192 | 17.11 | |
8 | B02 | 10 420 846 | 8 057 402 | 5 615 587 | 53.89 | 2 156 458 | 1 171 935 | 690 974 | 9.81 |
D07 | 4 061 039 | 2 785 294 | 1 891 770 | 46.58 | 1 394 239 | 493 022 | 177 403 | 4.913 | |
E08 | 6 950 628 | 5 557 934 | 3 889 196 | 55.95 | 1 994 770 | 906 953 | 490 601 | 7.87 | |
G12 | 11 162 134 | 8 765 612 | 5 907 141 | 52.92 | 2 334 809 | 1 324 775 | 759 389 | 9.39 |