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Table 3 Expression of exemplary novel ncRNAs under 11 different growth conditions (MM, minimal medium)

From: Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq – ryhB encodes the regulatory RNA RyhB and a peptide, RyhP

Name Length [nt] LB plain MM LB + nitrite LB pH9 Radish sprouts Spinach juice LB 15°C LB + antibiotics Cow dung LB solid medium LB pH4
ncR1085800 72 4177 4563 4990 345 25504 3228 1940 655 11683 1410 9815
ncR1114186 94 641 0 416 684 102 29 1382 0 65 246 26
ncR1481381 99 2774 3227 3740 291 19298 2504 1266 411 8632 1108 6997
ncR1483108 77 128 188 223 46 31 79 33 42 0 48 32
ncR1509794 96 628 0 529 628 50 7 1407 0 51 288 43
ncR1641710 114 168 356 662 533 504 183 215 14 21 65 7
ncR1854285 91 153 30 45 10 92 30 34 232 27 8 109
ncR1864748 174 23 26 24 3 28 4 24 262 28 13 19
ncR1868696 103 293 210 353 185 267 59 387 16 106 43 48
ncR1999946 51 34 18 215 43 117 0 251 0 95 0 0
ncR2585184 44 119 41 109 20 27 76 372 0 0 51 0
ncR348122 91 382 30 324 136 355 1440 1152 36 67 172 244
ncR3526958 96 18 28 21 5 212 56 112 0 101 8 69
ncR4137844 268 551 249 558 821 304 283 1113 55 77 265 55
ncR4546182 36 129 75 343 135 0 0 227 0 34 207 0
ncR4853400 65 134 139 369 341 331 341 102 0 75 149 0
ncR612919 36 80 50 38 49 0 224 0 0 34 21 0
  1. The RPKM values for each condition are shown. The experimental setup is described in Landstorfer et al. [17]; data for all novel ncRNAs can be found in Additional file 7: Table S5