miRNA display CGI


Results 1 - 20 of 26 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
15752 3' -57 NC_004065.1 + 32002 0.66 0.922122
Target:  5'- aGAGCGCCgCAAGGAgcgUCUgGAGAGcaugcccaGGUg -3'
miRNA:   3'- -CUCGCGGaGUUCCU---GGAgUUCUC--------CCA- -5'
15752 3' -57 NC_004065.1 + 78293 0.66 0.922122
Target:  5'- uAGCgGCuCUCGAGGGCCUCGGacugcGuGGGc -3'
miRNA:   3'- cUCG-CG-GAGUUCCUGGAGUU-----CuCCCa -5'
15752 3' -57 NC_004065.1 + 142439 0.66 0.922122
Target:  5'- cGGCuCCUCAGGGuCaugaaggcgaUCGAGAGGGa -3'
miRNA:   3'- cUCGcGGAGUUCCuGg---------AGUUCUCCCa -5'
15752 3' -57 NC_004065.1 + 179439 0.66 0.904875
Target:  5'- cGGCGCCcgaagacagUAGGGugCUCGAGGauGGGa -3'
miRNA:   3'- cUCGCGGa--------GUUCCugGAGUUCU--CCCa -5'
15752 3' -57 NC_004065.1 + 127196 0.66 0.904875
Target:  5'- cGGGC-CCUCGGGGACguggUUCGGGAGcGGc -3'
miRNA:   3'- -CUCGcGGAGUUCCUG----GAGUUCUC-CCa -5'
15752 3' -57 NC_004065.1 + 36020 0.67 0.898676
Target:  5'- cGAGCGCgagauuaugUUCAucAGGGCC--GAGAGGGUc -3'
miRNA:   3'- -CUCGCG---------GAGU--UCCUGGagUUCUCCCA- -5'
15752 3' -57 NC_004065.1 + 17727 0.67 0.898676
Target:  5'- -uGCGCCUCAGGcGAUCU-GGGAGGc- -3'
miRNA:   3'- cuCGCGGAGUUC-CUGGAgUUCUCCca -5'
15752 3' -57 NC_004065.1 + 149018 0.67 0.898044
Target:  5'- cGGCGaucggaaCCUCGGGcuGACCUCGGGAGcGGg -3'
miRNA:   3'- cUCGC-------GGAGUUC--CUGGAGUUCUC-CCa -5'
15752 3' -57 NC_004065.1 + 117823 0.67 0.892255
Target:  5'- uAGCGCCgUCGAGGGCgaCAccAGcGGGUu -3'
miRNA:   3'- cUCGCGG-AGUUCCUGgaGU--UCuCCCA- -5'
15752 3' -57 NC_004065.1 + 98221 0.67 0.885617
Target:  5'- cGAGCGaggaCUCGAGGAUC----GAGGGUg -3'
miRNA:   3'- -CUCGCg---GAGUUCCUGGaguuCUCCCA- -5'
15752 3' -57 NC_004065.1 + 57766 0.68 0.8493
Target:  5'- cGAGCGCCagGuGGccGCCUUAcGAGGGg -3'
miRNA:   3'- -CUCGCGGagUuCC--UGGAGUuCUCCCa -5'
15752 3' -57 NC_004065.1 + 37288 0.69 0.772702
Target:  5'- aGAGCGCCaguuUCGGcGGCCUCAAGAGcccccGGUc -3'
miRNA:   3'- -CUCGCGG----AGUUcCUGGAGUUCUC-----CCA- -5'
15752 3' -57 NC_004065.1 + 211656 0.7 0.754153
Target:  5'- uGGGCGCUUCGuucgugcGGAUCguUCGAGGGGGa -3'
miRNA:   3'- -CUCGCGGAGUu------CCUGG--AGUUCUCCCa -5'
15752 3' -57 NC_004065.1 + 80958 0.7 0.744719
Target:  5'- aGGCaCCUCGGGGGagcCCUCcaccAAGAGGGUg -3'
miRNA:   3'- cUCGcGGAGUUCCU---GGAG----UUCUCCCA- -5'
15752 3' -57 NC_004065.1 + 196628 0.71 0.706129
Target:  5'- -uGCGCCggggCGAGcGCCUCGAGAGGc- -3'
miRNA:   3'- cuCGCGGa---GUUCcUGGAGUUCUCCca -5'
15752 3' -57 NC_004065.1 + 222733 0.71 0.696311
Target:  5'- gGAGCuCCUCGcccGGGACCcaacgUAGGAGGGg -3'
miRNA:   3'- -CUCGcGGAGU---UCCUGGa----GUUCUCCCa -5'
15752 3' -57 NC_004065.1 + 130289 0.71 0.686442
Target:  5'- gGAGCGCgagGAGGACgaCGAGAGGGg -3'
miRNA:   3'- -CUCGCGgagUUCCUGgaGUUCUCCCa -5'
15752 3' -57 NC_004065.1 + 143070 0.71 0.686442
Target:  5'- gGGGCGCUUCGGGGGCgaCGAGcgaaucuacguGGGGUc -3'
miRNA:   3'- -CUCGCGGAGUUCCUGgaGUUC-----------UCCCA- -5'
15752 3' -57 NC_004065.1 + 149084 0.71 0.686442
Target:  5'- aGGUGCCUgaaAAGGACgUCcuGAGGGUa -3'
miRNA:   3'- cUCGCGGAg--UUCCUGgAGuuCUCCCA- -5'
15752 3' -57 NC_004065.1 + 130882 0.71 0.656607
Target:  5'- cGGGCGCCggcgUGAGGuCCUCAuGAGGuGUg -3'
miRNA:   3'- -CUCGCGGa---GUUCCuGGAGUuCUCC-CA- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.