miRNA display CGI


Results 1 - 20 of 23 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
27612 3' -60.8 NC_005882.1 + 9732 0.66 0.354529
Target:  5'- gCCGGCUcaaUCGGGAGCGuugcuggUCGCGACa- -3'
miRNA:   3'- -GGCCGAca-GGUCCUCGU-------GGCGCUGga -5'
27612 3' -60.8 NC_005882.1 + 3974 0.66 0.338907
Target:  5'- uCCgGGCUGcucuugaccucUCCAgcGGGGcCACgGCGGCCa -3'
miRNA:   3'- -GG-CCGAC-----------AGGU--CCUC-GUGgCGCUGGa -5'
27612 3' -60.8 NC_005882.1 + 23084 0.66 0.336487
Target:  5'- uCCGGCUgcGUUCAcGGcGCcgaugauguccgcgGCCGUGACCUu -3'
miRNA:   3'- -GGCCGA--CAGGU-CCuCG--------------UGGCGCUGGA- -5'
27612 3' -60.8 NC_005882.1 + 27633 0.66 0.330888
Target:  5'- gCCGGCgg-CCGcGcGCGCgGCGACCg -3'
miRNA:   3'- -GGCCGacaGGUcCuCGUGgCGCUGGa -5'
27612 3' -60.8 NC_005882.1 + 14418 0.66 0.330888
Target:  5'- uUGGCuUGUCCuGGGGCGaaGCaGCCg -3'
miRNA:   3'- gGCCG-ACAGGuCCUCGUggCGcUGGa -5'
27612 3' -60.8 NC_005882.1 + 31301 0.66 0.32301
Target:  5'- gUCGGCa-UCCAGGAG-GCCGCGAa-- -3'
miRNA:   3'- -GGCCGacAGGUCCUCgUGGCGCUgga -5'
27612 3' -60.8 NC_005882.1 + 582 0.66 0.31835
Target:  5'- aCCGGCUGUcCCAGcGAgaucgGCAgauuuucgacgaauuCCGCGGCg- -3'
miRNA:   3'- -GGCCGACA-GGUC-CU-----CGU---------------GGCGCUGga -5'
27612 3' -60.8 NC_005882.1 + 29863 0.66 0.315272
Target:  5'- -aGGUUcGUCCGGucaAGCGCCGCGcguGCCUu -3'
miRNA:   3'- ggCCGA-CAGGUCc--UCGUGGCGC---UGGA- -5'
27612 3' -60.8 NC_005882.1 + 12334 0.67 0.307675
Target:  5'- aCGGCUG-CCGGcGGCGCCGauCGGCa- -3'
miRNA:   3'- gGCCGACaGGUCcUCGUGGC--GCUGga -5'
27612 3' -60.8 NC_005882.1 + 14482 0.67 0.307675
Target:  5'- aUCGGCUGcuucgccCCAGGAcaagccaacGCGgCGCGACUUc -3'
miRNA:   3'- -GGCCGACa------GGUCCU---------CGUgGCGCUGGA- -5'
27612 3' -60.8 NC_005882.1 + 31596 0.67 0.290736
Target:  5'- aCGGCUGgcagCCGGG-GCAacucggcucgcucgUCGaCGACCUg -3'
miRNA:   3'- gGCCGACa---GGUCCuCGU--------------GGC-GCUGGA- -5'
27612 3' -60.8 NC_005882.1 + 22755 0.67 0.285728
Target:  5'- cCCGGCcGUacaCAaGAGCAaCGCGGCCa -3'
miRNA:   3'- -GGCCGaCAg--GUcCUCGUgGCGCUGGa -5'
27612 3' -60.8 NC_005882.1 + 22942 0.67 0.271794
Target:  5'- aCCGGCacgauucgCCGGGuGCgACgGCGGCCa -3'
miRNA:   3'- -GGCCGaca-----GGUCCuCG-UGgCGCUGGa -5'
27612 3' -60.8 NC_005882.1 + 12876 0.68 0.265034
Target:  5'- gCCGGCuuUGUCCGcguguGGAaCGCCGCcGCCg -3'
miRNA:   3'- -GGCCG--ACAGGU-----CCUcGUGGCGcUGGa -5'
27612 3' -60.8 NC_005882.1 + 27688 0.68 0.251924
Target:  5'- cCCGaGCUGcguugaugcgcUgCAGGGaCGCCGCGGCCg -3'
miRNA:   3'- -GGC-CGAC-----------AgGUCCUcGUGGCGCUGGa -5'
27612 3' -60.8 NC_005882.1 + 29996 0.69 0.197862
Target:  5'- cUCGGCgcucgccGUCCAGGccggcaaaggcggcGGCACCGCGAa-- -3'
miRNA:   3'- -GGCCGa------CAGGUCC--------------UCGUGGCGCUgga -5'
27612 3' -60.8 NC_005882.1 + 13300 0.7 0.194232
Target:  5'- gCCGGCUGaUCUgcucGAGCACCGCcuuGAUCUg -3'
miRNA:   3'- -GGCCGAC-AGGuc--CUCGUGGCG---CUGGA- -5'
27612 3' -60.8 NC_005882.1 + 20440 0.71 0.148438
Target:  5'- cCCGGCguagcUGUUCGGGuucugcgcgAGguCCGCGACCa -3'
miRNA:   3'- -GGCCG-----ACAGGUCC---------UCguGGCGCUGGa -5'
27612 3' -60.8 NC_005882.1 + 15273 0.72 0.140545
Target:  5'- gCgGGCgucGaCCGGGAGCGCCGUGAgCa -3'
miRNA:   3'- -GgCCGa--CaGGUCCUCGUGGCGCUgGa -5'
27612 3' -60.8 NC_005882.1 + 12224 0.72 0.136745
Target:  5'- aCCGGCaccUCUGGGAGCGCaucacgGCGGCCg -3'
miRNA:   3'- -GGCCGac-AGGUCCUCGUGg-----CGCUGGa -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.