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
1661 5' -51.8 NC_001347.2 + 6393 0.66 0.996399
Target:  5'- gGGCCugccACUggaCcGCCACGUauuccAGCCAGUGu -3'
miRNA:   3'- -CCGGu---UGA---GaUGGUGCAa----UCGGUCAU- -5'
1661 5' -51.8 NC_001347.2 + 222446 0.66 0.996399
Target:  5'- aGGCCGAUcgaCUGCCGCaugagAGCgGGUGg -3'
miRNA:   3'- -CCGGUUGa--GAUGGUGcaa--UCGgUCAU- -5'
1661 5' -51.8 NC_001347.2 + 126319 0.66 0.996043
Target:  5'- gGGCCAgguGCUgcugaccauggccuaCUACCuauuCGagGGCCAGUAc -3'
miRNA:   3'- -CCGGU---UGA---------------GAUGGu---GCaaUCGGUCAU- -5'
1661 5' -51.8 NC_001347.2 + 75996 0.66 0.995791
Target:  5'- cGGCCAGCUCgcagagcuCCugGUacGCgCGGUu -3'
miRNA:   3'- -CCGGUUGAGau------GGugCAauCG-GUCAu -5'
1661 5' -51.8 NC_001347.2 + 208379 0.66 0.995027
Target:  5'- cGGCCAGCaacccgaUCUucggAUC-CGUcAGCCAGUAa -3'
miRNA:   3'- -CCGGUUG-------AGA----UGGuGCAaUCGGUCAU- -5'
1661 5' -51.8 NC_001347.2 + 164690 0.66 0.993445
Target:  5'- uGGCCG---UUGCCGCGUUAGCgccgcuuuCGGUAc -3'
miRNA:   3'- -CCGGUugaGAUGGUGCAAUCG--------GUCAU- -5'
1661 5' -51.8 NC_001347.2 + 79634 0.66 0.992463
Target:  5'- cGGCCGGCUgCUgcACCACagc-GCCAGg- -3'
miRNA:   3'- -CCGGUUGA-GA--UGGUGcaauCGGUCau -5'
1661 5' -51.8 NC_001347.2 + 197764 0.67 0.990151
Target:  5'- aGUCGGC-CUGCUACGUgAGCCGcGUGc -3'
miRNA:   3'- cCGGUUGaGAUGGUGCAaUCGGU-CAU- -5'
1661 5' -51.8 NC_001347.2 + 89163 0.67 0.988804
Target:  5'- cGUCAaaGC-CUGCUGCGUggugAGCCGGUGc -3'
miRNA:   3'- cCGGU--UGaGAUGGUGCAa---UCGGUCAU- -5'
1661 5' -51.8 NC_001347.2 + 78644 0.67 0.988804
Target:  5'- cGCCgAACUCUACCACcu--GCCcGUGu -3'
miRNA:   3'- cCGG-UUGAGAUGGUGcaauCGGuCAU- -5'
1661 5' -51.8 NC_001347.2 + 191466 0.67 0.987317
Target:  5'- cGCCGcCUUgggcgucACCACGUUGGaCCAGUc -3'
miRNA:   3'- cCGGUuGAGa------UGGUGCAAUC-GGUCAu -5'
1661 5' -51.8 NC_001347.2 + 180887 0.68 0.981525
Target:  5'- cGCCGucauGCUCUACCGCGgugacguggagAGCCuGUc -3'
miRNA:   3'- cCGGU----UGAGAUGGUGCaa---------UCGGuCAu -5'
1661 5' -51.8 NC_001347.2 + 25396 0.68 0.979808
Target:  5'- uGGCCGGCUUgACCGCGUUGuugagcGCCu--- -3'
miRNA:   3'- -CCGGUUGAGaUGGUGCAAU------CGGucau -5'
1661 5' -51.8 NC_001347.2 + 170981 0.68 0.977498
Target:  5'- cGGCCGACcCUuucUCGCGUgacGCCAGUu -3'
miRNA:   3'- -CCGGUUGaGAu--GGUGCAau-CGGUCAu -5'
1661 5' -51.8 NC_001347.2 + 136183 0.68 0.975
Target:  5'- cGGCCGgaACcCUGCCGCGgacugcGCCGGg- -3'
miRNA:   3'- -CCGGU--UGaGAUGGUGCaau---CGGUCau -5'
1661 5' -51.8 NC_001347.2 + 191793 0.69 0.969406
Target:  5'- aGCCGcaggcGCUCUGCCA-GUUGGCgAGg- -3'
miRNA:   3'- cCGGU-----UGAGAUGGUgCAAUCGgUCau -5'
1661 5' -51.8 NC_001347.2 + 38607 0.69 0.959425
Target:  5'- cGCCAGCUcCUGCCACGc--GCCcagcAGUAc -3'
miRNA:   3'- cCGGUUGA-GAUGGUGCaauCGG----UCAU- -5'
1661 5' -51.8 NC_001347.2 + 157064 0.7 0.955651
Target:  5'- uGCUGGCUCUGCUguggcGCGgucaUGGCCAGUc -3'
miRNA:   3'- cCGGUUGAGAUGG-----UGCa---AUCGGUCAu -5'
1661 5' -51.8 NC_001347.2 + 115655 1.09 0.009408
Target:  5'- aGGCCAACUCUACCACGUUAGCCAGUAc -3'
miRNA:   3'- -CCGGUUGAGAUGGUGCAAUCGGUCAU- -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.