miRNA display CGI


Results 1 - 20 of 74 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
28168 3' -52.4 NC_005887.1 + 31232 1.11 0.00122
Target:  5'- aCGACGCGAUCGAACAUGCCACCGUUCu -3'
miRNA:   3'- -GCUGCGCUAGCUUGUACGGUGGCAAG- -5'
28168 3' -52.4 NC_005887.1 + 28045 0.81 0.128643
Target:  5'- uCGGCGUGAUCGAGCAggcgcugcGCCACCcauGUUCg -3'
miRNA:   3'- -GCUGCGCUAGCUUGUa-------CGGUGG---CAAG- -5'
28168 3' -52.4 NC_005887.1 + 12797 0.79 0.180846
Target:  5'- gCGGCGCGAUCGAGCGcauucUGCUGCUGcgCg -3'
miRNA:   3'- -GCUGCGCUAGCUUGU-----ACGGUGGCaaG- -5'
28168 3' -52.4 NC_005887.1 + 28594 0.77 0.237893
Target:  5'- cCGGCGCGcgUGAGCGUGCCugACCGcaucgUCa -3'
miRNA:   3'- -GCUGCGCuaGCUUGUACGG--UGGCa----AG- -5'
28168 3' -52.4 NC_005887.1 + 13183 0.77 0.244359
Target:  5'- gCGGgaGCGGUCGAGCAgGCCGCCGg-- -3'
miRNA:   3'- -GCUg-CGCUAGCUUGUaCGGUGGCaag -5'
28168 3' -52.4 NC_005887.1 + 30274 0.76 0.2789
Target:  5'- cCGGCGCGA-CGAuCGUGCCGCgcacgaCGUUCg -3'
miRNA:   3'- -GCUGCGCUaGCUuGUACGGUG------GCAAG- -5'
28168 3' -52.4 NC_005887.1 + 10706 0.75 0.309248
Target:  5'- uCGaACGCGAUgGAccGCgcgGUGCCGCUGUUCg -3'
miRNA:   3'- -GC-UGCGCUAgCU--UG---UACGGUGGCAAG- -5'
28168 3' -52.4 NC_005887.1 + 16524 0.74 0.368253
Target:  5'- -cGCGCGGUCGAgcGCAUGCCcgcgcgcacGCgGUUCu -3'
miRNA:   3'- gcUGCGCUAGCU--UGUACGG---------UGgCAAG- -5'
28168 3' -52.4 NC_005887.1 + 33785 0.73 0.434536
Target:  5'- uCGcCGCGAUCGAGCAgaucGaCCGCCGcgCc -3'
miRNA:   3'- -GCuGCGCUAGCUUGUa---C-GGUGGCaaG- -5'
28168 3' -52.4 NC_005887.1 + 31382 0.72 0.454709
Target:  5'- uCGACGCGcUCGGcguagcgguGCGUGCCGUgGUUCa -3'
miRNA:   3'- -GCUGCGCuAGCU---------UGUACGGUGgCAAG- -5'
28168 3' -52.4 NC_005887.1 + 6251 0.72 0.474332
Target:  5'- uGAcCGCGAUCGAgggcaaucuaccgACAgGCCACCGcacgUCg -3'
miRNA:   3'- gCU-GCGCUAGCU-------------UGUaCGGUGGCa---AG- -5'
28168 3' -52.4 NC_005887.1 + 8046 0.72 0.475377
Target:  5'- aCGACGUGcUCGAcGCGUGUCugCGUg- -3'
miRNA:   3'- -GCUGCGCuAGCU-UGUACGGugGCAag -5'
28168 3' -52.4 NC_005887.1 + 32640 0.72 0.475377
Target:  5'- aCGAUGUGAUCGAcCGUGUgcagcuCACCGgugUCg -3'
miRNA:   3'- -GCUGCGCUAGCUuGUACG------GUGGCa--AG- -5'
28168 3' -52.4 NC_005887.1 + 16777 0.72 0.475377
Target:  5'- uCGACGCGAugaaggUCGGGCAgaauuuccuUGCaCGCgCGUUCg -3'
miRNA:   3'- -GCUGCGCU------AGCUUGU---------ACG-GUG-GCAAG- -5'
28168 3' -52.4 NC_005887.1 + 14204 0.72 0.475377
Target:  5'- gGGCGCGGccUCGGACAgggcggcGCCgcGCUGUUCg -3'
miRNA:   3'- gCUGCGCU--AGCUUGUa------CGG--UGGCAAG- -5'
28168 3' -52.4 NC_005887.1 + 33285 0.72 0.485886
Target:  5'- aCGGCGCGAcCGAGugccaGUGCgGCgCGUUCa -3'
miRNA:   3'- -GCUGCGCUaGCUUg----UACGgUG-GCAAG- -5'
28168 3' -52.4 NC_005887.1 + 41016 0.71 0.518043
Target:  5'- cCGAaGCGGUCGAGCAUGCgcuCGgCGUUg -3'
miRNA:   3'- -GCUgCGCUAGCUUGUACG---GUgGCAAg -5'
28168 3' -52.4 NC_005887.1 + 18636 0.71 0.528952
Target:  5'- aCGcCGCGA-CGAGCAUGUCGCCc--- -3'
miRNA:   3'- -GCuGCGCUaGCUUGUACGGUGGcaag -5'
28168 3' -52.4 NC_005887.1 + 1839 0.7 0.551014
Target:  5'- cCGACGCGcagGUCGAGCAUGUCgaggAUCGgcUUCg -3'
miRNA:   3'- -GCUGCGC---UAGCUUGUACGG----UGGC--AAG- -5'
28168 3' -52.4 NC_005887.1 + 6449 0.7 0.562151
Target:  5'- gCGuACGCu-UCGAGCAUGCCGCaGUUg -3'
miRNA:   3'- -GC-UGCGcuAGCUUGUACGGUGgCAAg -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.