miRNA display CGI


Results 1 - 20 of 25 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
23336 3' -52.5 NC_005259.1 + 66885 0.66 0.928023
Target:  5'- gCGCCACGgcuUGAUCgugaACGG-CGguAGAUCc -3'
miRNA:   3'- -GCGGUGCa--ACUAG----UGCCaGC--UCUAGc -5'
23336 3' -52.5 NC_005259.1 + 58771 0.66 0.928023
Target:  5'- aCGCUGCGggcgcugUGcgC-CGGUCGAGG-CGg -3'
miRNA:   3'- -GCGGUGCa------ACuaGuGCCAGCUCUaGC- -5'
23336 3' -52.5 NC_005259.1 + 36414 0.66 0.926329
Target:  5'- gCGCCucaagGGUCAUGGUcugcgcagcgucgcCGAGGUCGa -3'
miRNA:   3'- -GCGGugcaaCUAGUGCCA--------------GCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 10637 0.66 0.916275
Target:  5'- gGCCGaacaGcUUGGccUCGCGGUCGAGcgCc -3'
miRNA:   3'- gCGGUg---C-AACU--AGUGCCAGCUCuaGc -5'
23336 3' -52.5 NC_005259.1 + 36153 0.66 0.909997
Target:  5'- uCGCCAUGgc---CACGGUgacgaccuugcCGAGGUCGa -3'
miRNA:   3'- -GCGGUGCaacuaGUGCCA-----------GCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 22997 0.66 0.909997
Target:  5'- aCGCCGCcgaGGUCAccgaggacggcuCGGucaUCGAGAUCGa -3'
miRNA:   3'- -GCGGUGcaaCUAGU------------GCC---AGCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 19149 0.67 0.889573
Target:  5'- gGCaCACaccGAUCAgGGUCGAGGUUc -3'
miRNA:   3'- gCG-GUGcaaCUAGUgCCAGCUCUAGc -5'
23336 3' -52.5 NC_005259.1 + 39154 0.68 0.856323
Target:  5'- uCGCCgACGUUGAaaccgccgaacacgUCGagcaGGUCGAGAaagucaUCGa -3'
miRNA:   3'- -GCGG-UGCAACU--------------AGUg---CCAGCUCU------AGC- -5'
23336 3' -52.5 NC_005259.1 + 18162 0.68 0.850494
Target:  5'- gGCUgACGccgGAUCugGcaGUCGAGGUCGa -3'
miRNA:   3'- gCGG-UGCaa-CUAGugC--CAGCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 61877 0.68 0.850494
Target:  5'- uGCCGCG-UGAUCACGaccUCGAuAUCa -3'
miRNA:   3'- gCGGUGCaACUAGUGCc--AGCUcUAGc -5'
23336 3' -52.5 NC_005259.1 + 66430 0.69 0.805845
Target:  5'- cCGCCACG-UGAUgACGGUCucGAaagugccgUCGa -3'
miRNA:   3'- -GCGGUGCaACUAgUGCCAGcuCU--------AGC- -5'
23336 3' -52.5 NC_005259.1 + 9665 0.69 0.776845
Target:  5'- uGCC-CGUUGuucCAcaugcgcugcCGGUCGAGGUCGc -3'
miRNA:   3'- gCGGuGCAACua-GU----------GCCAGCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 46308 0.7 0.756761
Target:  5'- gGCUGCGUUGuUCGCGGcccCGAGgGUCGc -3'
miRNA:   3'- gCGGUGCAACuAGUGCCa--GCUC-UAGC- -5'
23336 3' -52.5 NC_005259.1 + 6641 0.7 0.756761
Target:  5'- cCGCC-CGUgacGA-CACGGUCGAGggUGu -3'
miRNA:   3'- -GCGGuGCAa--CUaGUGCCAGCUCuaGC- -5'
23336 3' -52.5 NC_005259.1 + 33318 0.7 0.755744
Target:  5'- cCGCCGuCGgcGGUCACGcGgaagugaUCGGGGUCGa -3'
miRNA:   3'- -GCGGU-GCaaCUAGUGC-C-------AGCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 8919 0.7 0.750635
Target:  5'- gGCCGCGUUcugggcucguuugucGAUCACGGU-GGGcgCGc -3'
miRNA:   3'- gCGGUGCAA---------------CUAGUGCCAgCUCuaGC- -5'
23336 3' -52.5 NC_005259.1 + 8689 0.7 0.746527
Target:  5'- cCGCCuCGaUG-UCGCuGUCGAGGUCGu -3'
miRNA:   3'- -GCGGuGCaACuAGUGcCAGCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 19671 0.7 0.72573
Target:  5'- cCGCUACauccccGGUCA-GGUCGGGAUCGa -3'
miRNA:   3'- -GCGGUGcaa---CUAGUgCCAGCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 18974 0.71 0.704568
Target:  5'- uCGCCGCGUacAUCGCccGGcaCGAGAUCGg -3'
miRNA:   3'- -GCGGUGCAacUAGUG--CCa-GCUCUAGC- -5'
23336 3' -52.5 NC_005259.1 + 5554 0.71 0.693878
Target:  5'- gGCCGCGUggggUGGUgACGG-CGAGAcCGu -3'
miRNA:   3'- gCGGUGCA----ACUAgUGCCaGCUCUaGC- -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.