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Table 1 Mapping distribution of the clean reads in small RNA libraries

From: Identification of four functionally important microRNA families with contrasting differential expression profiles between drought-tolerant and susceptible rice leaf at vegetative stage

Categories Vandana Aday Sel IR64
Total reads Unique reads Total reads Unique reads Total reads Unique reads
Clean reads 16 847 232 ± 1 528 242 3 332 304 ± 635 063 15 403 441 ± 1 282 332 2 394 590 ± 675 288 18 622 662 ± 1 208 043 3 643 737 ± 1 094 125
9311 rice genome 10 249 097 ± 1 228 933 (60.8 %) 1 480 850 ± 296 597 (44.4 %) 10 647 829 ± 1 682 873 (69.1 %) 793 346 ± 194 986 (33.1 %) 13 818 525 ± 2 320 473 (74.2 %) 1 614 944 ± 469 863 (44.3 %)
Exon antisense 123 658 ± 31 951 (0.7 %) 37 913 ± 10 407 (1.1 %) 143 789 ± 58 608 (0.9 %) 29 918 ± 8184 (1.3 %) 135 144 ± 31 018 (0.7 %) 43 449 ± 9513 (1.2 %)
Exon sense 148 224 ± 44 300 (0.9 %) 84 852 ± 23 724 (2.6 %) 159 436 ± 46 424 (1.0 %) 80 885 ± 14 721 (3.4 %) 184 756 ± 32 941 (1.0 %) 85 802 ± 26 065 (2.4 %)
Intron antisense 115 867 ± 30 826 (0.7 %) 50 016 ± 10 263 (1.5 %) 50 944 ± 20 434 (0.3 %) 26 964 ± 7620 (1.1 %) 132 987 ± 40 799 (0.7 %) 55 629 ± 15 460 (1.5 %)
Intron sense 188 761 ± 62 005 (1.1 %) 58 543 ± 12 020 (1.8 %) 83 925 ± 30 603 (0.5 %) 33 330 ± 8440 (1.4 %) 182 440 ± 36 679 (1.0 %) 62 038 ± 15 960 (1.7 %)
Known miRNA 4 457 106 ± 1 511 316 (26.5 %) 6037 ± 490 (0.2 %) 6 769 286 ± 1 144 378 (44.0 %) 5598 ± 985 (0.2 %) 5 404 163 ± 2 597 947 (29.0 %) 5759 ± 556 (0.2 %)
rRNA 1 046 140 ± 299 191 (6.2 %) 77 037 ± 12 331 (2.3 %) 1 785 015 ± 239 128 (11.6 %) 102 438 ± 13 644 (4.3 %) 699 723 ± 182 679 (3.8 %) 65 568 ± 9341 (1.8 %)
Repeat 2 433 147 ± 506 069 (14.4 %) 1 005 986 ± 166 997 (30.2 %) 1 547 941 ± 684 735 (10.1 %) 666 553 ± 189 898 (27.8 %) 2 609 401 ± 865 194 (14.0 %) 1 029 967 ± 288 440 (28.3 %)
snRNA 10 215 ± 4326 (0.1 %) 2250 ± 489 (0.1 %) 17 203 ± 1154 (0.1 %) 3136 ± 391 (0.1 %) 5920 ± 907 (0.0 %) 1566 ± 175 (0.0 %)
snoRNA 18 859 ± 5210 (0.1 %) 3261 ± 677 (0.1 %) 9806 ± 2330 (0.1 %) 2986 ± 598 (0.1 %) 9433 ± 2721 (0.1 %) 2816 ± 263 (0.1 %)
tRNA 2 428 011 ± 1 192 154 (14.4 %) 18 784 ± 3404 (0.6 %) 2 035 604 ± 2 480 765 (13.2 %) 18 371 ± 3104 (0.8 %) 4 904 192 ± 5 445 456 (26.3 %) 17 397 ± 3844 (0.5 %)
Unannotated 5 877 246 ± 1 887 347 (34.9 %) 1 987 625 ± 398 270 (59.7 %) 2 800 494 ± 1 023 410 (18.2 %) 1 424 411 ± 473 219 (59.5 %) 4 354 504 ± 1 328 748 (23.4 %) 2 273 749 ± 737 311 (62.4 %)
  1. In each rice variety, number of reads is shown as the mean of the four libraries generated ± standard deviation. Percent of the total clean reads is shown in bracket