miRNA display CGI


Results 1 - 20 of 28 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
25559 5' -54.3 NC_005337.1 + 65683 0.66 0.937814
Target:  5'- aGGCGcgGAGuuugucCCUGUUGG-UGcACAGCCg -3'
miRNA:   3'- -CCGCa-CUC------GGACAACCuGC-UGUUGGa -5'
25559 5' -54.3 NC_005337.1 + 28974 0.66 0.932803
Target:  5'- gGGCGUGcgcAGCgaCUGcgGGcaGCGGCGGCCg -3'
miRNA:   3'- -CCGCAC---UCG--GACaaCC--UGCUGUUGGa -5'
25559 5' -54.3 NC_005337.1 + 102298 0.66 0.932803
Target:  5'- uGGUGcaGuuCCUGgcGGACGugAGCCUg -3'
miRNA:   3'- -CCGCa-CucGGACaaCCUGCugUUGGA- -5'
25559 5' -54.3 NC_005337.1 + 55950 0.66 0.932803
Target:  5'- cGCGUGGucGCCgccaacgUGGACaGCGACCUc -3'
miRNA:   3'- cCGCACU--CGGaca----ACCUGcUGUUGGA- -5'
25559 5' -54.3 NC_005337.1 + 84682 0.66 0.932803
Target:  5'- cGGaCG-GGGCCgUGUUcgaGGugGACGACUUc -3'
miRNA:   3'- -CC-GCaCUCGG-ACAA---CCugCUGUUGGA- -5'
25559 5' -54.3 NC_005337.1 + 46252 0.66 0.927546
Target:  5'- aGCGUGA-CCUGgauggUGGGcCGGCAcACCa -3'
miRNA:   3'- cCGCACUcGGACa----ACCU-GCUGU-UGGa -5'
25559 5' -54.3 NC_005337.1 + 56143 0.67 0.922041
Target:  5'- cGGCGUGcAGCg----GGGCGGCAagGCCg -3'
miRNA:   3'- -CCGCAC-UCGgacaaCCUGCUGU--UGGa -5'
25559 5' -54.3 NC_005337.1 + 67189 0.67 0.920341
Target:  5'- cGGCGccGGGCUgcaagGUgcucaucaccaccaUGGACGGCGACUa -3'
miRNA:   3'- -CCGCa-CUCGGa----CA--------------ACCUGCUGUUGGa -5'
25559 5' -54.3 NC_005337.1 + 54208 0.67 0.916289
Target:  5'- --gGUGAGCCUcGUgggcgcGGAUGACAGCg- -3'
miRNA:   3'- ccgCACUCGGA-CAa-----CCUGCUGUUGga -5'
25559 5' -54.3 NC_005337.1 + 127658 0.67 0.910291
Target:  5'- cGGCGUGccggcGCCUcauccaGaUGGGCGcCGACCUg -3'
miRNA:   3'- -CCGCACu----CGGA------CaACCUGCuGUUGGA- -5'
25559 5' -54.3 NC_005337.1 + 52999 0.67 0.910291
Target:  5'- cGCGUGcuCCUGUaGcGGCGGCAugaACCUg -3'
miRNA:   3'- cCGCACucGGACAaC-CUGCUGU---UGGA- -5'
25559 5' -54.3 NC_005337.1 + 45531 0.67 0.897564
Target:  5'- cGGCGUcggGAGCCgGUgcUGGAguCGGCGccGCCg -3'
miRNA:   3'- -CCGCA---CUCGGaCA--ACCU--GCUGU--UGGa -5'
25559 5' -54.3 NC_005337.1 + 106576 0.67 0.890841
Target:  5'- -uCGUGcAGCCgGUggcgUGGACGcGCGACCUg -3'
miRNA:   3'- ccGCAC-UCGGaCA----ACCUGC-UGUUGGA- -5'
25559 5' -54.3 NC_005337.1 + 81126 0.67 0.890841
Target:  5'- aGGUGgaUGAGCUUGUUGGAC-ACGuggaaguuggACCg -3'
miRNA:   3'- -CCGC--ACUCGGACAACCUGcUGU----------UGGa -5'
25559 5' -54.3 NC_005337.1 + 82779 0.68 0.883882
Target:  5'- cGGCGUGAGgUUGac-GACGGgAGCCg -3'
miRNA:   3'- -CCGCACUCgGACaacCUGCUgUUGGa -5'
25559 5' -54.3 NC_005337.1 + 130246 0.68 0.872271
Target:  5'- cGCGUgggcuuccccgccauGAGCCUGcgGGACGuccucgucagcGCGACCg -3'
miRNA:   3'- cCGCA---------------CUCGGACaaCCUGC-----------UGUUGGa -5'
25559 5' -54.3 NC_005337.1 + 22398 0.68 0.869278
Target:  5'- -uCGUGuaccGCCUGgaGGACGAC-ACCg -3'
miRNA:   3'- ccGCACu---CGGACaaCCUGCUGuUGGa -5'
25559 5' -54.3 NC_005337.1 + 96486 0.68 0.861643
Target:  5'- cGGCG-GGGCCUGgccugGGaACGAUAGgCa -3'
miRNA:   3'- -CCGCaCUCGGACaa---CC-UGCUGUUgGa -5'
25559 5' -54.3 NC_005337.1 + 130961 0.69 0.829027
Target:  5'- cGGCGUG-GCCg--UGGACGugcGCAACg- -3'
miRNA:   3'- -CCGCACuCGGacaACCUGC---UGUUGga -5'
25559 5' -54.3 NC_005337.1 + 54101 0.69 0.820391
Target:  5'- cGGCGUGuacgGGCgCUGcuacgUGGagcGCGACGGCCg -3'
miRNA:   3'- -CCGCAC----UCG-GACa----ACC---UGCUGUUGGa -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.