miRNA display CGI


Results 1 - 20 of 43 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
22856 3' -49 NC_005137.2 + 71 0.7 0.97374
Target:  5'- gCGCGCGUCGUCGuaccugccggcaaAAAGAAGGUcuucaauUUGUa -3'
miRNA:   3'- -GCGCGCAGUAGU-------------UUUCUUUCG-------AGCGg -5'
22856 3' -49 NC_005137.2 + 1452 0.69 0.984496
Target:  5'- -cCGCGUCAgaacgCAAAAGAuuuucaaugcgcgccAcaauGCUCGCCa -3'
miRNA:   3'- gcGCGCAGUa----GUUUUCU---------------Uu---CGAGCGG- -5'
22856 3' -49 NC_005137.2 + 2176 0.68 0.990262
Target:  5'- gCGCGCGcuUCAUCAAGuuu-AGUUUGCg -3'
miRNA:   3'- -GCGCGC--AGUAGUUUucuuUCGAGCGg -5'
22856 3' -49 NC_005137.2 + 5129 0.66 0.99662
Target:  5'- aCGCGCGcCGaCAAuuaaacuuGGAAGaaaUCGCCa -3'
miRNA:   3'- -GCGCGCaGUaGUUuu------CUUUCg--AGCGG- -5'
22856 3' -49 NC_005137.2 + 8923 0.74 0.844659
Target:  5'- uGUGUGUCGUCAAAGuGAcccGGC-CGCCg -3'
miRNA:   3'- gCGCGCAGUAGUUUU-CUu--UCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 9925 0.66 0.997148
Target:  5'- uGCGCGUCAUCAAAcu---GC-CGUUu -3'
miRNA:   3'- gCGCGCAGUAGUUUucuuuCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 12213 0.7 0.974297
Target:  5'- aCGCGCGcauguaacgcuUCAUCGcuGGAuuguAGGC-CGCCu -3'
miRNA:   3'- -GCGCGC-----------AGUAGUuuUCU----UUCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 20192 0.66 0.998
Target:  5'- uGCGCGUCGgcgggcggcgUCGAuugcGAAAGCgcguaCGCUu -3'
miRNA:   3'- gCGCGCAGU----------AGUUuu--CUUUCGa----GCGG- -5'
22856 3' -49 NC_005137.2 + 22827 0.66 0.997148
Target:  5'- uGCGCGUUGcCAAAcgcGAGGGCgggCGCg -3'
miRNA:   3'- gCGCGCAGUaGUUUu--CUUUCGa--GCGg -5'
22856 3' -49 NC_005137.2 + 23568 0.66 0.996945
Target:  5'- aCGUGCGUguUCuucccacGGCUCGUCg -3'
miRNA:   3'- -GCGCGCAguAGuuuucuuUCGAGCGG- -5'
22856 3' -49 NC_005137.2 + 31249 0.66 0.998338
Target:  5'- uCGCGCGgc--CAAAcaauuAGu--GCUCGCCa -3'
miRNA:   3'- -GCGCGCaguaGUUU-----UCuuuCGAGCGG- -5'
22856 3' -49 NC_005137.2 + 31404 0.66 0.99662
Target:  5'- uGCGCGUCAcCAAccguGgcAGCUgcacgucgaCGCCg -3'
miRNA:   3'- gCGCGCAGUaGUUuu--CuuUCGA---------GCGG- -5'
22856 3' -49 NC_005137.2 + 37423 0.71 0.957606
Target:  5'- cCGCGCGUUuggAUCAGcguGAuuGC-CGCCg -3'
miRNA:   3'- -GCGCGCAG---UAGUUuu-CUuuCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 39828 0.66 0.997148
Target:  5'- aCGcCGCGcCA-CGGAAGAAAGCgaguuuagCGCa -3'
miRNA:   3'- -GC-GCGCaGUaGUUUUCUUUCGa-------GCGg -5'
22856 3' -49 NC_005137.2 + 42382 0.66 0.997605
Target:  5'- aGCGCGUCAaguguugCAAGuu-GAGCUucggcggugcccCGCCg -3'
miRNA:   3'- gCGCGCAGUa------GUUUucuUUCGA------------GCGG- -5'
22856 3' -49 NC_005137.2 + 42444 0.73 0.876104
Target:  5'- cCGCGCGcaaUCAUCA--AGAAaauuuauAGCUaCGCCa -3'
miRNA:   3'- -GCGCGC---AGUAGUuuUCUU-------UCGA-GCGG- -5'
22856 3' -49 NC_005137.2 + 42883 0.66 0.99777
Target:  5'- uCGCGUGUCcgUu---GAGGGCguguuuucacacgcgUCGCCg -3'
miRNA:   3'- -GCGCGCAGuaGuuuuCUUUCG---------------AGCGG- -5'
22856 3' -49 NC_005137.2 + 52899 0.66 0.99662
Target:  5'- gGUGCGUCG-CAAGGGAAA-CU-GCCc -3'
miRNA:   3'- gCGCGCAGUaGUUUUCUUUcGAgCGG- -5'
22856 3' -49 NC_005137.2 + 61416 0.66 0.998338
Target:  5'- aCGcCGCGUUcUCAAAcaugucGGGAcGUUUGCCg -3'
miRNA:   3'- -GC-GCGCAGuAGUUU------UCUUuCGAGCGG- -5'
22856 3' -49 NC_005137.2 + 68008 0.67 0.995323
Target:  5'- gGCGCcgcaccauggGUCcgCcgaAAAAGAAAGCguugUCGCCg -3'
miRNA:   3'- gCGCG----------CAGuaG---UUUUCUUUCG----AGCGG- -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.