miRNA display CGI


Results 1 - 19 of 19 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
13555 3' -54.7 NC_003444.1 + 382 0.66 0.670025
Target:  5'- aCGCCGccAGAacucGUAGGCCAcgCACCa -3'
miRNA:   3'- -GCGGCcuUCUgc--CGUCUGGUaaGUGG- -5'
13555 3' -54.7 NC_003444.1 + 16054 0.66 0.63626
Target:  5'- cCGCCGGGGcaagcaacuGAUGGCuGuauuccCCGUUCGCa -3'
miRNA:   3'- -GCGGCCUU---------CUGCCGuCu-----GGUAAGUGg -5'
13555 3' -54.7 NC_003444.1 + 16472 0.66 0.63626
Target:  5'- gCGCCGGAAuGGCgguauuacuGGCAGgucaacauGCCAgcugcCACCa -3'
miRNA:   3'- -GCGGCCUU-CUG---------CCGUC--------UGGUaa---GUGG- -5'
13555 3' -54.7 NC_003444.1 + 14834 0.66 0.635132
Target:  5'- aGCCGGGAGccguaACGGUcauucuguaccgcAGGCCAgguaucccccCACCa -3'
miRNA:   3'- gCGGCCUUC-----UGCCG-------------UCUGGUaa--------GUGG- -5'
13555 3' -54.7 NC_003444.1 + 36705 0.67 0.613712
Target:  5'- aGCCGcGAAcGCGGCAGGCUuuuggaGUUCGa- -3'
miRNA:   3'- gCGGC-CUUcUGCCGUCUGG------UAAGUgg -5'
13555 3' -54.7 NC_003444.1 + 9311 0.67 0.602458
Target:  5'- aGCCaGGcuGACGaCAauacauagaccuGACCGUUCGCCa -3'
miRNA:   3'- gCGG-CCuuCUGCcGU------------CUGGUAAGUGG- -5'
13555 3' -54.7 NC_003444.1 + 8182 0.67 0.580039
Target:  5'- gCGCCGGugagaaccGGAgcgcccguucCGGCGGucCCcgUCGCCa -3'
miRNA:   3'- -GCGGCCu-------UCU----------GCCGUCu-GGuaAGUGG- -5'
13555 3' -54.7 NC_003444.1 + 17536 0.68 0.556696
Target:  5'- uGuuGGAgaaGGACGGuCAacaaugacaggauGACCGUucUCACCa -3'
miRNA:   3'- gCggCCU---UCUGCC-GU-------------CUGGUA--AGUGG- -5'
13555 3' -54.7 NC_003444.1 + 70 0.68 0.546773
Target:  5'- gGCUGGA--ACGGCGGGgCGUuccgggcgUCGCCc -3'
miRNA:   3'- gCGGCCUucUGCCGUCUgGUA--------AGUGG- -5'
13555 3' -54.7 NC_003444.1 + 7667 0.68 0.535814
Target:  5'- uGCCGu----CGGCAGACUAUgcaCGCCa -3'
miRNA:   3'- gCGGCcuucuGCCGUCUGGUAa--GUGG- -5'
13555 3' -54.7 NC_003444.1 + 13442 0.68 0.514136
Target:  5'- aCGUCaGGAAuaacacccGACGGCGcACCGUuguUCACCa -3'
miRNA:   3'- -GCGG-CCUU--------CUGCCGUcUGGUA---AGUGG- -5'
13555 3' -54.7 NC_003444.1 + 16187 0.69 0.46165
Target:  5'- uCGCCGGAucGCuGGCuGACCAUgcaggACCg -3'
miRNA:   3'- -GCGGCCUucUG-CCGuCUGGUAag---UGG- -5'
13555 3' -54.7 NC_003444.1 + 13251 0.7 0.421769
Target:  5'- uGCCGGAcguagucuGACGGCuGACCugAUUgACUg -3'
miRNA:   3'- gCGGCCUu-------CUGCCGuCUGG--UAAgUGG- -5'
13555 3' -54.7 NC_003444.1 + 16328 0.7 0.412127
Target:  5'- cCGCCGGAAuacauucaucCGGCAGACCg--CACa -3'
miRNA:   3'- -GCGGCCUUcu--------GCCGUCUGGuaaGUGg -5'
13555 3' -54.7 NC_003444.1 + 12668 0.71 0.374957
Target:  5'- uGCCGGAugcguGACGGaAGGCCA---GCCa -3'
miRNA:   3'- gCGGCCUu----CUGCCgUCUGGUaagUGG- -5'
13555 3' -54.7 NC_003444.1 + 1109 0.72 0.331789
Target:  5'- cCGuCCGGAGGAUGGCGcGCgGUUUgaACCg -3'
miRNA:   3'- -GC-GGCCUUCUGCCGUcUGgUAAG--UGG- -5'
13555 3' -54.7 NC_003444.1 + 16269 0.72 0.313986
Target:  5'- uGCCGGAugaauguauuccGGCGggaacGCAGACCcUUCGCCa -3'
miRNA:   3'- gCGGCCUu-----------CUGC-----CGUCUGGuAAGUGG- -5'
13555 3' -54.7 NC_003444.1 + 29981 0.73 0.292387
Target:  5'- gGCCGGAAGAU-GCAGAUCAUaUugCu -3'
miRNA:   3'- gCGGCCUUCUGcCGUCUGGUAaGugG- -5'
13555 3' -54.7 NC_003444.1 + 15551 1.13 0.000371
Target:  5'- aCGCCGGAAGACGGCAGACCAUUCACCg -3'
miRNA:   3'- -GCGGCCUUCUGCCGUCUGGUAAGUGG- -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.