miRNA display CGI


Results 1 - 17 of 17 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
24135 3' -51.9 NC_005263.2 + 13382 0.66 0.848065
Target:  5'- cGCCGcaauuGCUCGccacGCCCaAUGGUUUGCAGa -3'
miRNA:   3'- -CGGU-----CGAGCu---UGGGcUACUAGAUGUU- -5'
24135 3' -51.9 NC_005263.2 + 40425 0.66 0.810427
Target:  5'- gGCCGaCUCGAACCCGGuUGAagacggGCAAa -3'
miRNA:   3'- -CGGUcGAGCUUGGGCU-ACUaga---UGUU- -5'
24135 3' -51.9 NC_005263.2 + 3996 0.66 0.810427
Target:  5'- cGCCgAGCagCGcACCUGAccGAUCUGCAGc -3'
miRNA:   3'- -CGG-UCGa-GCuUGGGCUa-CUAGAUGUU- -5'
24135 3' -51.9 NC_005263.2 + 390 0.67 0.80048
Target:  5'- cGCCAa--CGAugCCGAUGAUCaGCGu -3'
miRNA:   3'- -CGGUcgaGCUugGGCUACUAGaUGUu -5'
24135 3' -51.9 NC_005263.2 + 24554 0.67 0.80048
Target:  5'- uGCCGGCUgCGGgaacaggcccgACUCGAUGAUCg---- -3'
miRNA:   3'- -CGGUCGA-GCU-----------UGGGCUACUAGauguu -5'
24135 3' -51.9 NC_005263.2 + 27439 0.67 0.780022
Target:  5'- cGCuCGGCaaacacugCGAGCCCGAUGucaccuUCUGCc- -3'
miRNA:   3'- -CG-GUCGa-------GCUUGGGCUACu-----AGAUGuu -5'
24135 3' -51.9 NC_005263.2 + 37363 0.68 0.715052
Target:  5'- gGCCGuGCUCGAugcGCUCGA--GUCUGCGu -3'
miRNA:   3'- -CGGU-CGAGCU---UGGGCUacUAGAUGUu -5'
24135 3' -51.9 NC_005263.2 + 17484 0.68 0.715052
Target:  5'- gGCCGGCgcagcauccUCGAcauGCCCGAggaUGAUCUGa-- -3'
miRNA:   3'- -CGGUCG---------AGCU---UGGGCU---ACUAGAUguu -5'
24135 3' -51.9 NC_005263.2 + 25741 0.68 0.713934
Target:  5'- cGCCGuGCaCGAccuguccGCCCGcGUGAUCUGCGu -3'
miRNA:   3'- -CGGU-CGaGCU-------UGGGC-UACUAGAUGUu -5'
24135 3' -51.9 NC_005263.2 + 40902 0.68 0.703835
Target:  5'- cGCCGGCgauggucgCGGACUCGGU-AUCUACu- -3'
miRNA:   3'- -CGGUCGa-------GCUUGGGCUAcUAGAUGuu -5'
24135 3' -51.9 NC_005263.2 + 22527 0.68 0.692542
Target:  5'- gGCCuGCUCGAugCCGAgacGggCcGCAAa -3'
miRNA:   3'- -CGGuCGAGCUugGGCUa--CuaGaUGUU- -5'
24135 3' -51.9 NC_005263.2 + 45469 0.69 0.681186
Target:  5'- cCCGGCgCGAACgugCCGAUcgcGAUCUACGAc -3'
miRNA:   3'- cGGUCGaGCUUG---GGCUA---CUAGAUGUU- -5'
24135 3' -51.9 NC_005263.2 + 30014 0.71 0.555471
Target:  5'- cGUCGGCUUGAGCuuGuUGAUCUGgGg -3'
miRNA:   3'- -CGGUCGAGCUUGggCuACUAGAUgUu -5'
24135 3' -51.9 NC_005263.2 + 23570 0.71 0.522036
Target:  5'- aGCCGGCaggcaCGAACCCGcacuAUG-UCUACAAg -3'
miRNA:   3'- -CGGUCGa----GCUUGGGC----UACuAGAUGUU- -5'
24135 3' -51.9 NC_005263.2 + 39766 0.71 0.522036
Target:  5'- gGCaAGCUCGGcaaagacuGCUCGAUGGUCUGCc- -3'
miRNA:   3'- -CGgUCGAGCU--------UGGGCUACUAGAUGuu -5'
24135 3' -51.9 NC_005263.2 + 46321 0.72 0.478744
Target:  5'- aUCGGCUCGAACgCCG-UGAUCUaaGCGGg -3'
miRNA:   3'- cGGUCGAGCUUG-GGCuACUAGA--UGUU- -5'
24135 3' -51.9 NC_005263.2 + 38799 1.09 0.001618
Target:  5'- cGCCAGCUCGAACCCGAUGAUCUACAAg -3'
miRNA:   3'- -CGGUCGAGCUUGGGCUACUAGAUGUU- -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.