miRNA display CGI


Results 1 - 20 of 29 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
23368 3' -57.4 NC_005259.1 + 66272 0.72 0.319417
Target:  5'- -cGGGCGGCGGCUcACG-CCgcCACCAUc -3'
miRNA:   3'- cuCCUGUCGCCGA-UGCuGGa-GUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 63091 0.68 0.519383
Target:  5'- uGAcGACAuCGGCUGCGAaCUCACgGCa -3'
miRNA:   3'- -CUcCUGUcGCCGAUGCUgGAGUGgUG- -5'
23368 3' -57.4 NC_005259.1 + 62565 0.8 0.087613
Target:  5'- -cGGGCAGCGGCcacaucagACGACCUCGCCc- -3'
miRNA:   3'- cuCCUGUCGCCGa-------UGCUGGAGUGGug -5'
23368 3' -57.4 NC_005259.1 + 61606 0.66 0.657664
Target:  5'- uGGGGuCGGCGGggAacagcaGACCggCACCGCc -3'
miRNA:   3'- -CUCCuGUCGCCgaUg-----CUGGa-GUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 60389 0.67 0.550642
Target:  5'- -cGGACAGCGGCgagGCGagGCC-CAUCuCg -3'
miRNA:   3'- cuCCUGUCGCCGa--UGC--UGGaGUGGuG- -5'
23368 3' -57.4 NC_005259.1 + 53136 0.67 0.561193
Target:  5'- aGAGGAagaaaugaccauCAGCcGCUAcgccgaggcCGAUCUCGCCACc -3'
miRNA:   3'- -CUCCU------------GUCGcCGAU---------GCUGGAGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 50511 0.67 0.593146
Target:  5'- -uGGGCGGUGcGCUGC-ACCUCGaCGCg -3'
miRNA:   3'- cuCCUGUCGC-CGAUGcUGGAGUgGUG- -5'
23368 3' -57.4 NC_005259.1 + 48445 0.69 0.439943
Target:  5'- cGAGG-CAGCGGCaGCGcguUC-CACCGCg -3'
miRNA:   3'- -CUCCuGUCGCCGaUGCu--GGaGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 47946 0.71 0.367886
Target:  5'- cGAuGACGGCGGUgccgAUGGCCgccgCGCCGCc -3'
miRNA:   3'- -CUcCUGUCGCCGa---UGCUGGa---GUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 46667 0.68 0.498936
Target:  5'- uGAGGuucuCGGCGaGCU-CGGCCUgagcCGCCGCc -3'
miRNA:   3'- -CUCCu---GUCGC-CGAuGCUGGA----GUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 46086 0.66 0.62538
Target:  5'- cGGGGCgAGCGGU----GCCUCaACCACg -3'
miRNA:   3'- cUCCUG-UCGCCGaugcUGGAG-UGGUG- -5'
23368 3' -57.4 NC_005259.1 + 42060 0.7 0.385128
Target:  5'- cGGGGugGGCGGCUAgGuAUCgcagCACCGa -3'
miRNA:   3'- -CUCCugUCGCCGAUgC-UGGa---GUGGUg -5'
23368 3' -57.4 NC_005259.1 + 37187 0.68 0.488848
Target:  5'- cGAGGACGa--GCUGCGGCCcUUGCCGCc -3'
miRNA:   3'- -CUCCUGUcgcCGAUGCUGG-AGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 32530 0.68 0.528692
Target:  5'- -cGGGCGGCaGGCU-UGACCUUgcuguugGCCGCc -3'
miRNA:   3'- cuCCUGUCG-CCGAuGCUGGAG-------UGGUG- -5'
23368 3' -57.4 NC_005259.1 + 31978 0.75 0.203241
Target:  5'- cAGGACAGCGGUgACGGCCaUAgCACa -3'
miRNA:   3'- cUCCUGUCGCCGaUGCUGGaGUgGUG- -5'
23368 3' -57.4 NC_005259.1 + 26530 0.68 0.509116
Target:  5'- -cGGugAGCaGCUuggccaccACGAUCUCACCGa -3'
miRNA:   3'- cuCCugUCGcCGA--------UGCUGGAGUGGUg -5'
23368 3' -57.4 NC_005259.1 + 18958 0.71 0.359467
Target:  5'- cGAGGAUGG-GGU---GACCUCGCCGCg -3'
miRNA:   3'- -CUCCUGUCgCCGaugCUGGAGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 18379 0.67 0.550642
Target:  5'- cGAGGGCGGUaGCgagggagACGAgcaCCUCGCCGa -3'
miRNA:   3'- -CUCCUGUCGcCGa------UGCU---GGAGUGGUg -5'
23368 3' -57.4 NC_005259.1 + 16704 0.66 0.667322
Target:  5'- cGAGGugAccgccgaGCaGGUcGCGcucuGCCUCGCCACg -3'
miRNA:   3'- -CUCCugU-------CG-CCGaUGC----UGGAGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 13213 0.7 0.430499
Target:  5'- cGGGGcCAGCGGUgggccuCGACCg-GCCACc -3'
miRNA:   3'- -CUCCuGUCGCCGau----GCUGGagUGGUG- -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.