miRNA display CGI


Results 1 - 20 of 111 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
28135 3' -54.6 NC_005887.1 + 18548 0.66 0.713331
Target:  5'- cGGUGGgcggcggCGCCGGCUucGCGggcgacaugcucgucGCGGCguuccagucGGCCg -3'
miRNA:   3'- -CUACUa------GCGGCUGA--UGU---------------UGCCG---------CCGG- -5'
28135 3' -54.6 NC_005887.1 + 13674 0.66 0.708957
Target:  5'- --cGcgCGCCGcGCUgccaGCAGCGaugaaguacGCGGCCu -3'
miRNA:   3'- cuaCuaGCGGC-UGA----UGUUGC---------CGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 1891 0.66 0.708957
Target:  5'- cGUG-UCGCCGAagaUGCcguaccagguCGGCGGCa -3'
miRNA:   3'- cUACuAGCGGCUg--AUGuu--------GCCGCCGg -5'
28135 3' -54.6 NC_005887.1 + 16478 0.66 0.708957
Target:  5'- --cGAUCucgGCCGcgugaGCUucCGGcCGGCGGCCg -3'
miRNA:   3'- cuaCUAG---CGGC-----UGAu-GUU-GCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 6982 0.66 0.708957
Target:  5'- -----aUGCCGAgUUGCGGgauucgcuCGGCGGCCa -3'
miRNA:   3'- cuacuaGCGGCU-GAUGUU--------GCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 27336 0.66 0.708957
Target:  5'- -----aCGUCGACUgcgccacgcGCAGCGGCGcGCa -3'
miRNA:   3'- cuacuaGCGGCUGA---------UGUUGCCGC-CGg -5'
28135 3' -54.6 NC_005887.1 + 35666 0.66 0.708957
Target:  5'- -----cUGUCGACaUACAGCagcgcgcgaucGGCGGCCg -3'
miRNA:   3'- cuacuaGCGGCUG-AUGUUG-----------CCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 36381 0.66 0.708957
Target:  5'- -cUGAUCcUCGACgacggccGCGAUGGUGGUCu -3'
miRNA:   3'- cuACUAGcGGCUGa------UGUUGCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 37475 0.66 0.708957
Target:  5'- -----gCGCCGGaUGCGaucaggGCGGCGGUCa -3'
miRNA:   3'- cuacuaGCGGCUgAUGU------UGCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 32412 0.66 0.708957
Target:  5'- ----uUCGUCGACguggccgGCGGCGauGUGGCCg -3'
miRNA:   3'- cuacuAGCGGCUGa------UGUUGC--CGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 1592 0.66 0.705667
Target:  5'- --cGGUCGUCGACaGCAGgucCGGguacguguuccgcaCGGCCg -3'
miRNA:   3'- cuaCUAGCGGCUGaUGUU---GCC--------------GCCGG- -5'
28135 3' -54.6 NC_005887.1 + 32296 0.66 0.697967
Target:  5'- --cGAUCGUCGGgc-CAGcCGGCGcGCCg -3'
miRNA:   3'- cuaCUAGCGGCUgauGUU-GCCGC-CGG- -5'
28135 3' -54.6 NC_005887.1 + 37762 0.66 0.697967
Target:  5'- -cUGAUCGCCcccGGCgucgcuUGCAugcGgGGCGGCUg -3'
miRNA:   3'- cuACUAGCGG---CUG------AUGU---UgCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 9304 0.66 0.697967
Target:  5'- --cGAUCGCCGAC----GCGGCGcaguucGCUa -3'
miRNA:   3'- cuaCUAGCGGCUGauguUGCCGC------CGG- -5'
28135 3' -54.6 NC_005887.1 + 19724 0.66 0.68691
Target:  5'- gGGUG-UCGCgGAUcuggUGCAuUGGCGGCa -3'
miRNA:   3'- -CUACuAGCGgCUG----AUGUuGCCGCCGg -5'
28135 3' -54.6 NC_005887.1 + 875 0.66 0.68691
Target:  5'- cGUGGcccgCGCCGcCggACGAgucaGGCGGCCu -3'
miRNA:   3'- cUACUa---GCGGCuGa-UGUUg---CCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 9892 0.66 0.68691
Target:  5'- --gGAUCcaGCCGG-UGCAGguCGGCGGCa -3'
miRNA:   3'- cuaCUAG--CGGCUgAUGUU--GCCGCCGg -5'
28135 3' -54.6 NC_005887.1 + 12641 0.66 0.68691
Target:  5'- --gGGUCGgCGGacaccaUGCGcaugcCGGCGGCCg -3'
miRNA:   3'- cuaCUAGCgGCUg-----AUGUu----GCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 13039 0.66 0.68025
Target:  5'- cGcgGGUCGCCGcuucggucugguauuGCUGUAGCGucGCGGCUu -3'
miRNA:   3'- -CuaCUAGCGGC---------------UGAUGUUGC--CGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 13511 0.66 0.6758
Target:  5'- --aGGUCGCCGGCacggGCAu--GCGcGCCa -3'
miRNA:   3'- cuaCUAGCGGCUGa---UGUugcCGC-CGG- -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.