miRNA display CGI


Results 1 - 16 of 16 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
24956 5' -51.8 NC_005284.1 + 16518 0.66 0.881622
Target:  5'- uCGGCGGggcCCAUCGUGGGgcUGGUGa- -3'
miRNA:   3'- cGUCGCC---GGUAGCACUCgaACUAUag -5'
24956 5' -51.8 NC_005284.1 + 52784 0.66 0.860372
Target:  5'- cCAGCGGCCAuacauuauggaagguUCGUGGGaaacgcuUAUCg -3'
miRNA:   3'- cGUCGCCGGU---------------AGCACUCgaacu--AUAG- -5'
24956 5' -51.8 NC_005284.1 + 25525 0.66 0.848206
Target:  5'- cGgAGCGGCCGUCGUcGuGCgcgc-GUCg -3'
miRNA:   3'- -CgUCGCCGGUAGCA-CuCGaacuaUAG- -5'
24956 5' -51.8 NC_005284.1 + 10018 0.66 0.848206
Target:  5'- --cGCGGCCuugCGcaagccGAGCgUGAUGUCg -3'
miRNA:   3'- cguCGCCGGua-GCa-----CUCGaACUAUAG- -5'
24956 5' -51.8 NC_005284.1 + 18588 0.66 0.839223
Target:  5'- uGCGGCGGgCAUCGUGuacggGAUcgAUCu -3'
miRNA:   3'- -CGUCGCCgGUAGCACucgaaCUA--UAG- -5'
24956 5' -51.8 NC_005284.1 + 9859 0.66 0.839223
Target:  5'- gGC-GCGcGCCGUugcgaCGUGAGCUUGcgccGUCg -3'
miRNA:   3'- -CGuCGC-CGGUA-----GCACUCGAACua--UAG- -5'
24956 5' -51.8 NC_005284.1 + 53892 0.67 0.830006
Target:  5'- -gGGCGGCCGUCGUc-GCUUGc---- -3'
miRNA:   3'- cgUCGCCGGUAGCAcuCGAACuauag -5'
24956 5' -51.8 NC_005284.1 + 14518 0.67 0.801063
Target:  5'- cGCAGCaGCCAUCGccGAcGCUgcgGGUGg- -3'
miRNA:   3'- -CGUCGcCGGUAGCa-CU-CGAa--CUAUag -5'
24956 5' -51.8 NC_005284.1 + 14060 0.67 0.801063
Target:  5'- cGCAGcCGcGCCAUCacuuuuucGAGCguccUGAUGUCg -3'
miRNA:   3'- -CGUC-GC-CGGUAGca------CUCGa---ACUAUAG- -5'
24956 5' -51.8 NC_005284.1 + 3554 0.68 0.738396
Target:  5'- cGCAGCcguaGCCGUCGUGuGCUcaccGAgcuUGUCg -3'
miRNA:   3'- -CGUCGc---CGGUAGCACuCGAa---CU---AUAG- -5'
24956 5' -51.8 NC_005284.1 + 50087 0.69 0.727476
Target:  5'- aGCAGCGGUaCGUCGUGGGgCgcGAgccuUCg -3'
miRNA:   3'- -CGUCGCCG-GUAGCACUC-GaaCUau--AG- -5'
24956 5' -51.8 NC_005284.1 + 15221 0.7 0.648884
Target:  5'- cGCAGCGGCCGaaGacaUGGGCgaGAUuGUCg -3'
miRNA:   3'- -CGUCGCCGGUagC---ACUCGaaCUA-UAG- -5'
24956 5' -51.8 NC_005284.1 + 21733 0.7 0.648884
Target:  5'- cGCGGCGG-CAUCGUGcGCggcGAUcgCa -3'
miRNA:   3'- -CGUCGCCgGUAGCACuCGaa-CUAuaG- -5'
24956 5' -51.8 NC_005284.1 + 11243 0.71 0.580689
Target:  5'- cGCGGCGGCCGcggCGcGAGCUgc--GUCa -3'
miRNA:   3'- -CGUCGCCGGUa--GCaCUCGAacuaUAG- -5'
24956 5' -51.8 NC_005284.1 + 39231 0.72 0.503284
Target:  5'- uGCuGCGcucgaUCGUCGUGAGCguggUGAUGUCg -3'
miRNA:   3'- -CGuCGCc----GGUAGCACUCGa---ACUAUAG- -5'
24956 5' -51.8 NC_005284.1 + 42815 1.11 0.001341
Target:  5'- aGCAGCGGCCAUCGUGAGCUUGAUAUCc -3'
miRNA:   3'- -CGUCGCCGGUAGCACUCGAACUAUAG- -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.