miRNA display CGI


Results 1 - 16 of 16 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
26661 3' -60.2 NC_005808.1 + 24774 0.66 0.37893
Target:  5'- gCGGcccgaccgACUGgcaccgauggaCAGCCUGGGCguggacguggcccGCGGCGg -3'
miRNA:   3'- -GCCa-------UGACag---------GUCGGACCCG-------------UGCCGC- -5'
26661 3' -60.2 NC_005808.1 + 27499 0.66 0.381553
Target:  5'- aGGgcCUG--CGGCCgccGGGCGCGGUGc -3'
miRNA:   3'- gCCauGACagGUCGGa--CCCGUGCCGC- -5'
26661 3' -60.2 NC_005808.1 + 12990 0.66 0.408442
Target:  5'- ---aGCUGaCUAGCguuaUGGGCGCGGCc -3'
miRNA:   3'- gccaUGACaGGUCGg---ACCCGUGCCGc -5'
26661 3' -60.2 NC_005808.1 + 37207 0.67 0.314305
Target:  5'- aGGUGCUcgcggcgcgcaCCAGugacauaacCCUGGGCGCGGUGc -3'
miRNA:   3'- gCCAUGAca---------GGUC---------GGACCCGUGCCGC- -5'
26661 3' -60.2 NC_005808.1 + 12283 0.67 0.33143
Target:  5'- gGGuUGCUGgcCCAGCgUGccGGCuACGGCGg -3'
miRNA:   3'- gCC-AUGACa-GGUCGgAC--CCG-UGCCGC- -5'
26661 3' -60.2 NC_005808.1 + 25420 0.67 0.329055
Target:  5'- cCGGUggccggcuaugcgaACUGgCCGGCCUGGaCAauccCGGCGa -3'
miRNA:   3'- -GCCA--------------UGACaGGUCGGACCcGU----GCCGC- -5'
26661 3' -60.2 NC_005808.1 + 21727 0.68 0.27929
Target:  5'- gCGGUACggaugCCA-CCguUGGGCGCGGCc -3'
miRNA:   3'- -GCCAUGaca--GGUcGG--ACCCGUGCCGc -5'
26661 3' -60.2 NC_005808.1 + 885 0.69 0.252541
Target:  5'- uGGccgAC-GUUCGGCaagggCUGGGCGCGGCGc -3'
miRNA:   3'- gCCa--UGaCAGGUCG-----GACCCGUGCCGC- -5'
26661 3' -60.2 NC_005808.1 + 29660 0.7 0.216412
Target:  5'- aGGUAgccgUUGcCCAGCa-GGGCGCGGCc -3'
miRNA:   3'- gCCAU----GACaGGUCGgaCCCGUGCCGc -5'
26661 3' -60.2 NC_005808.1 + 12816 0.7 0.227936
Target:  5'- aGGaGCgcgCCAagcGUCUGGGCGCGGCa -3'
miRNA:   3'- gCCaUGacaGGU---CGGACCCGUGCCGc -5'
26661 3' -60.2 NC_005808.1 + 29670 0.71 0.168754
Target:  5'- cCGGcGCUGgacaacuggcaaaCCGcgcGCCUGGGCGCGGCc -3'
miRNA:   3'- -GCCaUGACa------------GGU---CGGACCCGUGCCGc -5'
26661 3' -60.2 NC_005808.1 + 1371 0.71 0.170575
Target:  5'- uGGUgGCcGUCgc-CCUGGGCGCGGCGg -3'
miRNA:   3'- gCCA-UGaCAGgucGGACCCGUGCCGC- -5'
26661 3' -60.2 NC_005808.1 + 7604 0.72 0.162079
Target:  5'- gGGU-CUGUCCGucuGCCguggugauggucaggGGGCGCGGCu -3'
miRNA:   3'- gCCAuGACAGGU---CGGa--------------CCCGUGCCGc -5'
26661 3' -60.2 NC_005808.1 + 32452 0.72 0.145034
Target:  5'- uCGGUGCUGgcuUCCugcugggcGGCCgGGGCcucgGCGGCGa -3'
miRNA:   3'- -GCCAUGAC---AGG--------UCGGaCCCG----UGCCGC- -5'
26661 3' -60.2 NC_005808.1 + 32930 0.75 0.093127
Target:  5'- aCGGcgGCUGUUCGGCCaGGGCgaccACGGCu -3'
miRNA:   3'- -GCCa-UGACAGGUCGGaCCCG----UGCCGc -5'
26661 3' -60.2 NC_005808.1 + 11997 1.09 0.000246
Target:  5'- uCGGUACUGUCCAGCCUGGGCACGGCGg -3'
miRNA:   3'- -GCCAUGACAGGUCGGACCCGUGCCGC- -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.