Table 1.
Strain | Treatment | Repeat | Total reads | No. mapped | % mapped | Properly paired | % properly paired | Singletons | % singletons | Unique reads in ensembl v58 annotations | % unique reads in ensembl v58 annotations |
---|---|---|---|---|---|---|---|---|---|---|---|
BALB/c | Infected | 1 | 35 646 760 | 24 026 742 | 67.4 | 18 883 064 | 78.59 | 3 802 882 | 15.83 | 13 914 673 | 57.9 |
BALB/c | Infected | 2 | 39 663 694 | 26 450 844 | 73.3 | 21 349 672 | 80.71 | 4 071 578 | 15.39 | 15 261 028 | 57.7 |
BALB/c | Infected | 3 | 40 960 176 | 26 670 826 | 65.1 | 20 637 676 | 77.38 | 4 486 602 | 16.82 | 15 578 573 | 58.4 |
BALB/c | Thio | 1 | 40 398 232 | 26 011 652 | 64.3 | 21 817 520 | 83.88 | 3 454 426 | 13.28 | 14 732 920 | 56.6 |
BALB/c | Thio | 2 | 48 366 774 | 33 194 643 | 68.6 | 26 782 502 | 80.68 | 5 494 173 | 16.55 | 19 344 275 | 58.2 |
BALB/c | Thio | 3 | 45 552 296 | 28 796 129 | 63.2 | 24 350 132 | 84.56 | 4 167 411 | 14.47 | 16 480 896 | 57.2 |
IL4Rα−/− | Infected | 1 | 56 700 552 | 31 428 896 | 55.4 | 27 125 044 | 86.31 | 4 172 298 | 13.28 | 17 799 754 | 56.6 |
IL4Rα−/− | Infected | 2 | 23 150 358 | 15 076 797 | 65.1 | 12 977 824 | 86.08 | 1 911 075 | 12.68 | 8 493 659 | 56.3 |
IL4Rα−/− | Infected | 3 | 60 376 960 | 42 872 365 | 71.0 | 32 888 162 | 76.71 | 6 826 787 | 15.92 | 24 849 426 | 57.9 |
IL4Rα−/− | Thio | 1 | 40 492 838 | 24 144 541 | 59.6 | 19 772 782 | 81.89 | 3 547 653 | 14.69 | 13 845 966 | 57.3 |
IL4Rα−/− | Thio | 2 | 22 996 482 | 13 033 134 | 56.7 | 8 952 742 | 68.69 | 2 418 168 | 18.55 | 7 725 619 | 59.2 |
IL4Rα−/− | Thio | 3 | 36 062 844 | 19 911 073 | 55.2 | 14 751 228 | 74.09 | 3 874 775 | 19.46 | 11 892 859 | 59.7 |