miRNA display CGI


Results 1 - 20 of 46 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
19252 3' -60.5 NC_004684.1 + 60493 1.05 0.000648
Target:  5'- cACCGGGUGCAGGACGGUGACCAGCAUg -3'
miRNA:   3'- -UGGCCCACGUCCUGCCACUGGUCGUA- -5'
19252 3' -60.5 NC_004684.1 + 37516 0.74 0.139713
Target:  5'- aACCGGGcugaaggcaugagcUGCGcGAUGGUGACCGGCGc -3'
miRNA:   3'- -UGGCCC--------------ACGUcCUGCCACUGGUCGUa -5'
19252 3' -60.5 NC_004684.1 + 53359 0.73 0.178674
Target:  5'- gGCCGGGUacaGCAGGACGuUGACCgAGUu- -3'
miRNA:   3'- -UGGCCCA---CGUCCUGCcACUGG-UCGua -5'
19252 3' -60.5 NC_004684.1 + 43503 0.72 0.193169
Target:  5'- aGCCGGG-GCGGu-CGG-GACCAGCGUu -3'
miRNA:   3'- -UGGCCCaCGUCcuGCCaCUGGUCGUA- -5'
19252 3' -60.5 NC_004684.1 + 19605 0.71 0.236928
Target:  5'- gGCCGaGGUGCuGG-CGGUGACgcuCGGCGa -3'
miRNA:   3'- -UGGC-CCACGuCCuGCCACUG---GUCGUa -5'
19252 3' -60.5 NC_004684.1 + 22832 0.7 0.249093
Target:  5'- cCCGgcGGUGCAGGcCGGgcuggccaaGACCAGCAa -3'
miRNA:   3'- uGGC--CCACGUCCuGCCa--------CUGGUCGUa -5'
19252 3' -60.5 NC_004684.1 + 27029 0.7 0.249093
Target:  5'- cACCGGGUGCcGGugGcauuGUGuCCAGCc- -3'
miRNA:   3'- -UGGCCCACGuCCugC----CACuGGUCGua -5'
19252 3' -60.5 NC_004684.1 + 37572 0.7 0.26177
Target:  5'- uACCGGGaGCuGGA-GGUGcCCGGCAUc -3'
miRNA:   3'- -UGGCCCaCGuCCUgCCACuGGUCGUA- -5'
19252 3' -60.5 NC_004684.1 + 19544 0.7 0.26177
Target:  5'- -gCGGGUGCGccGGGCGGUG-CCAGg-- -3'
miRNA:   3'- ugGCCCACGU--CCUGCCACuGGUCgua -5'
19252 3' -60.5 NC_004684.1 + 32877 0.7 0.274968
Target:  5'- gAUCGGGUGguGGGCGGUGcucACCcucgacGCGg -3'
miRNA:   3'- -UGGCCCACguCCUGCCAC---UGGu-----CGUa -5'
19252 3' -60.5 NC_004684.1 + 64559 0.7 0.281764
Target:  5'- gACCGGGUuggugcGCAGGAUcGUGuACCGGCc- -3'
miRNA:   3'- -UGGCCCA------CGUCCUGcCAC-UGGUCGua -5'
19252 3' -60.5 NC_004684.1 + 9537 0.69 0.302949
Target:  5'- uGCCGGGacgcugGCAaucGGGCGGguaccggcGGCCAGCAc -3'
miRNA:   3'- -UGGCCCa-----CGU---CCUGCCa-------CUGGUCGUa -5'
19252 3' -60.5 NC_004684.1 + 29736 0.69 0.302949
Target:  5'- cACCGGGUcgauGCcugaccGGGCGGccaUGGCCAGCGc -3'
miRNA:   3'- -UGGCCCA----CGu-----CCUGCC---ACUGGUCGUa -5'
19252 3' -60.5 NC_004684.1 + 28103 0.69 0.316989
Target:  5'- cACCGGGUGguGcGGuucgaggccuugcUGGUGGCCuGCAc -3'
miRNA:   3'- -UGGCCCACguC-CU-------------GCCACUGGuCGUa -5'
19252 3' -60.5 NC_004684.1 + 32931 0.69 0.316989
Target:  5'- gACCGGGUgccucggGCAGGAUGGgccgcucGGgCAGCAc -3'
miRNA:   3'- -UGGCCCA-------CGUCCUGCCa------CUgGUCGUa -5'
19252 3' -60.5 NC_004684.1 + 19265 0.69 0.325339
Target:  5'- cACCGGGccgacCGGGACGGUgGACCcgauGCAg -3'
miRNA:   3'- -UGGCCCac---GUCCUGCCA-CUGGu---CGUa -5'
19252 3' -60.5 NC_004684.1 + 53519 0.68 0.332291
Target:  5'- uCCGGGccCAGGACGGUgucgucgGugCGGCGUg -3'
miRNA:   3'- uGGCCCacGUCCUGCCA-------CugGUCGUA- -5'
19252 3' -60.5 NC_004684.1 + 62835 0.68 0.340936
Target:  5'- gACCGGGUGuCGGuGAUGGUGuaGCgGGCc- -3'
miRNA:   3'- -UGGCCCAC-GUC-CUGCCAC--UGgUCGua -5'
19252 3' -60.5 NC_004684.1 + 67074 0.68 0.348935
Target:  5'- uACCcGGUGCGGGcguuggccuCGGcGGCCAGCGa -3'
miRNA:   3'- -UGGcCCACGUCCu--------GCCaCUGGUCGUa -5'
19252 3' -60.5 NC_004684.1 + 54372 0.68 0.348935
Target:  5'- uGCCGGGgGCGGGgucgaggccauGCGGgcaaguguaGACCGGCGg -3'
miRNA:   3'- -UGGCCCaCGUCC-----------UGCCa--------CUGGUCGUa -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.