miRNA display CGI


Results 1 - 20 of 46 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
29962 3' -56 NC_006273.1 + 20738 1.13 0.002844
Target:  5'- cUCACCGUGCUCGUGCCCAUCGUCUGCa -3'
miRNA:   3'- -AGUGGCACGAGCACGGGUAGCAGACG- -5'
29962 3' -56 NC_006273.1 + 21545 0.76 0.513006
Target:  5'- cCACCGUcgcuuucucaucucaGCcucgUCGUGCCCGUCGgCUGCc -3'
miRNA:   3'- aGUGGCA---------------CG----AGCACGGGUAGCaGACG- -5'
29962 3' -56 NC_006273.1 + 133498 0.73 0.645764
Target:  5'- -gACCGUGCagGUGUUCAUCGacCUGCg -3'
miRNA:   3'- agUGGCACGagCACGGGUAGCa-GACG- -5'
29962 3' -56 NC_006273.1 + 167026 0.72 0.714384
Target:  5'- gCGCCGUGCUCagcUGCUCGUCGcgUUGUc -3'
miRNA:   3'- aGUGGCACGAGc--ACGGGUAGCa-GACG- -5'
29962 3' -56 NC_006273.1 + 47682 0.72 0.72399
Target:  5'- aUCAUCGgcgugaUGCUCGUGCUgAUCGuggccauucUCUGCu -3'
miRNA:   3'- -AGUGGC------ACGAGCACGGgUAGC---------AGACG- -5'
29962 3' -56 NC_006273.1 + 192667 0.72 0.733521
Target:  5'- gUCGCCGUGUggcgCGgccugGCCgGcUGUCUGCg -3'
miRNA:   3'- -AGUGGCACGa---GCa----CGGgUaGCAGACG- -5'
29962 3' -56 NC_006273.1 + 115181 0.71 0.792212
Target:  5'- aUCACCaacguggaaggcgGCUCGcuggaaGCCgGUCGUCUGCg -3'
miRNA:   3'- -AGUGGca-----------CGAGCa-----CGGgUAGCAGACG- -5'
29962 3' -56 NC_006273.1 + 190900 0.7 0.806103
Target:  5'- cUCACCGccGCUC--GCCCGUUGUC-GCg -3'
miRNA:   3'- -AGUGGCa-CGAGcaCGGGUAGCAGaCG- -5'
29962 3' -56 NC_006273.1 + 96472 0.7 0.806103
Target:  5'- cCACCGUGUUCcugGUGCCgCGaCGUCacgGCa -3'
miRNA:   3'- aGUGGCACGAG---CACGG-GUaGCAGa--CG- -5'
29962 3' -56 NC_006273.1 + 118432 0.7 0.814594
Target:  5'- cCACUGUGCaCGUaGCCCGUCacgGUCgGCc -3'
miRNA:   3'- aGUGGCACGaGCA-CGGGUAG---CAGaCG- -5'
29962 3' -56 NC_006273.1 + 48520 0.69 0.876362
Target:  5'- cCACCGUGCUCGUcGUCCccuccuuaaucaGUUGUUcaUGUa -3'
miRNA:   3'- aGUGGCACGAGCA-CGGG------------UAGCAG--ACG- -5'
29962 3' -56 NC_006273.1 + 174223 0.69 0.876362
Target:  5'- gCAUCGUGCU-GUGCCUAa-GUCUGg -3'
miRNA:   3'- aGUGGCACGAgCACGGGUagCAGACg -5'
29962 3' -56 NC_006273.1 + 38325 0.69 0.876362
Target:  5'- gUCGCCGUGUcgUCGccGCCacCGUCGUCgccGCu -3'
miRNA:   3'- -AGUGGCACG--AGCa-CGG--GUAGCAGa--CG- -5'
29962 3' -56 NC_006273.1 + 39101 0.68 0.889869
Target:  5'- gUCAUgGUGCccuUCGUGCCgCA-CGcCUGCc -3'
miRNA:   3'- -AGUGgCACG---AGCACGG-GUaGCaGACG- -5'
29962 3' -56 NC_006273.1 + 176532 0.68 0.889869
Target:  5'- cCGCCGUGCUUGaGuCCCGauauggCGUCgUGCc -3'
miRNA:   3'- aGUGGCACGAGCaC-GGGUa-----GCAG-ACG- -5'
29962 3' -56 NC_006273.1 + 127946 0.68 0.896306
Target:  5'- uUCACCGUGCgCGgGaCCUcgCGUCguacGCg -3'
miRNA:   3'- -AGUGGCACGaGCaC-GGGuaGCAGa---CG- -5'
29962 3' -56 NC_006273.1 + 70328 0.68 0.896306
Target:  5'- gCGCCGUGCgUC-UGCCCGUgagcacCG-CUGCc -3'
miRNA:   3'- aGUGGCACG-AGcACGGGUA------GCaGACG- -5'
29962 3' -56 NC_006273.1 + 191354 0.68 0.896306
Target:  5'- -gGCCGUGCUCuaccuccugGcGCUUGUCGUCUGg -3'
miRNA:   3'- agUGGCACGAG---------CaCGGGUAGCAGACg -5'
29962 3' -56 NC_006273.1 + 148581 0.68 0.901915
Target:  5'- uUC-CCGguuucccGCcCGUGCCCGUCuacgcgguccacgGUCUGCa -3'
miRNA:   3'- -AGuGGCa------CGaGCACGGGUAG-------------CAGACG- -5'
29962 3' -56 NC_006273.1 + 124005 0.68 0.902527
Target:  5'- cCGCUGUGCU--UGUCCAgcUCGUCcgGCg -3'
miRNA:   3'- aGUGGCACGAgcACGGGU--AGCAGa-CG- -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.