miRNA display CGI


Results 1 - 20 of 21 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
22829 3' -49.5 NC_005135.1 + 169849 0.66 0.997807
Target:  5'- cGCUAAcaaacGGGUACCAauggcugcUGCAGAUguauugGCCGu -3'
miRNA:   3'- -CGGUU-----UCCGUGGU--------ACGUUUAa-----CGGUg -5'
22829 3' -49.5 NC_005135.1 + 81314 0.66 0.997807
Target:  5'- --uGAAGGUgaaACaucaGUGCAAAUUGCCGg -3'
miRNA:   3'- cggUUUCCG---UGg---UACGUUUAACGGUg -5'
22829 3' -49.5 NC_005135.1 + 130647 0.66 0.996889
Target:  5'- cGgCAAAGuGUGCUGUGCAGGUcgGCCGu -3'
miRNA:   3'- -CgGUUUC-CGUGGUACGUUUAa-CGGUg -5'
22829 3' -49.5 NC_005135.1 + 45415 0.67 0.994934
Target:  5'- aGCaCGAAcGGCGCCGauuCAAcgauAUUGCCGCa -3'
miRNA:   3'- -CG-GUUU-CCGUGGUac-GUU----UAACGGUG- -5'
22829 3' -49.5 NC_005135.1 + 149028 0.67 0.994934
Target:  5'- gGCCcGAGGUggGCCAUGaauuGAGUcGCCAUu -3'
miRNA:   3'- -CGGuUUCCG--UGGUACg---UUUAaCGGUG- -5'
22829 3' -49.5 NC_005135.1 + 103893 0.67 0.994096
Target:  5'- aGCCAGuuGGGUuUC-UGCAGAgcUUGCCAUa -3'
miRNA:   3'- -CGGUU--UCCGuGGuACGUUU--AACGGUG- -5'
22829 3' -49.5 NC_005135.1 + 52413 0.68 0.990895
Target:  5'- aCCAGAGGCuuAUCAUGCAuuuAUcGCgGCu -3'
miRNA:   3'- cGGUUUCCG--UGGUACGUu--UAaCGgUG- -5'
22829 3' -49.5 NC_005135.1 + 72532 0.68 0.986461
Target:  5'- cCCGAAGcuuguGCGCCGUGCAGGUguaUGgCAUg -3'
miRNA:   3'- cGGUUUC-----CGUGGUACGUUUA---ACgGUG- -5'
22829 3' -49.5 NC_005135.1 + 165883 0.68 0.986461
Target:  5'- cGgCAuu-GCACCGagGCGAAUUGCCAUc -3'
miRNA:   3'- -CgGUuucCGUGGUa-CGUUUAACGGUG- -5'
22829 3' -49.5 NC_005135.1 + 39381 0.68 0.986461
Target:  5'- aCCAAGGGCAaggaaauuUGCugaagauGUUGCCGCg -3'
miRNA:   3'- cGGUUUCCGUggu-----ACGuu-----UAACGGUG- -5'
22829 3' -49.5 NC_005135.1 + 72308 0.69 0.978178
Target:  5'- aGCCAA--GCGCC-UGCGAucaUGCCAUa -3'
miRNA:   3'- -CGGUUucCGUGGuACGUUua-ACGGUG- -5'
22829 3' -49.5 NC_005135.1 + 172907 0.69 0.978178
Target:  5'- cGCCAGAGGCAU--UGUAAGUcucagaGCCAa -3'
miRNA:   3'- -CGGUUUCCGUGguACGUUUAa-----CGGUg -5'
22829 3' -49.5 NC_005135.1 + 119807 0.69 0.975621
Target:  5'- uGCCuuuGAGGCGCUcgGCAAAcucacucaauUUGCUg- -3'
miRNA:   3'- -CGGu--UUCCGUGGuaCGUUU----------AACGGug -5'
22829 3' -49.5 NC_005135.1 + 26802 0.69 0.975621
Target:  5'- uGCCAucGaGCGCC-UGCAAGcUGCuCGCc -3'
miRNA:   3'- -CGGUuuC-CGUGGuACGUUUaACG-GUG- -5'
22829 3' -49.5 NC_005135.1 + 104484 0.7 0.96986
Target:  5'- gGCCAGguAGGCgGCCAUGgGAucauUUGCCuGCu -3'
miRNA:   3'- -CGGUU--UCCG-UGGUACgUUu---AACGG-UG- -5'
22829 3' -49.5 NC_005135.1 + 164005 0.7 0.966642
Target:  5'- uUCAAAGGCACCGauUGCAAuacccAUUGCg-- -3'
miRNA:   3'- cGGUUUCCGUGGU--ACGUU-----UAACGgug -5'
22829 3' -49.5 NC_005135.1 + 98404 0.7 0.963188
Target:  5'- cUCAuAGGCAggaccCCAUGCGAAUuUGCCGa -3'
miRNA:   3'- cGGUuUCCGU-----GGUACGUUUA-ACGGUg -5'
22829 3' -49.5 NC_005135.1 + 61248 0.71 0.951353
Target:  5'- aCCAAGGGUucgacACCuUGCGAAacGCCACc -3'
miRNA:   3'- cGGUUUCCG-----UGGuACGUUUaaCGGUG- -5'
22829 3' -49.5 NC_005135.1 + 69765 0.71 0.9469
Target:  5'- uGCCAGAGGCGa---GCGGGUUacaGCCGCu -3'
miRNA:   3'- -CGGUUUCCGUgguaCGUUUAA---CGGUG- -5'
22829 3' -49.5 NC_005135.1 + 115260 0.72 0.92475
Target:  5'- uGCCAcAAGGUACUacucucugcccagcGUGCAAAaUGCCAg -3'
miRNA:   3'- -CGGU-UUCCGUGG--------------UACGUUUaACGGUg -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.