miRNA display CGI


Results 1 - 20 of 200 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
14235 5' -58.3 NC_003521.1 + 124534 0.71 0.619036
Target:  5'- --aGCUGuccuccAGCGCCAGCuUGCGCACGu -3'
miRNA:   3'- cugCGGC------UCGUGGUCGuACGCGUGUu -5'
14235 5' -58.3 NC_003521.1 + 228740 0.72 0.549602
Target:  5'- uGCGUggUGAGCAgCGGCGUGCGCAUc- -3'
miRNA:   3'- cUGCG--GCUCGUgGUCGUACGCGUGuu -5'
14235 5' -58.3 NC_003521.1 + 40308 0.72 0.559407
Target:  5'- uGGCGuuGAGCcccuugGCCAGCucgGUGCGCGCc- -3'
miRNA:   3'- -CUGCggCUCG------UGGUCG---UACGCGUGuu -5'
14235 5' -58.3 NC_003521.1 + 59090 0.72 0.559407
Target:  5'- cGCGCgGccGCuugGCCAGCGUGCGCGCGu -3'
miRNA:   3'- cUGCGgCu-CG---UGGUCGUACGCGUGUu -5'
14235 5' -58.3 NC_003521.1 + 103500 0.72 0.559407
Target:  5'- uGGCGaaagggCGAGC-CCAGCAgcagGCGCGCGAa -3'
miRNA:   3'- -CUGCg-----GCUCGuGGUCGUa---CGCGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 214542 0.72 0.559407
Target:  5'- aGAUGCCcAGCACCAGCAccgGgGUGCAGu -3'
miRNA:   3'- -CUGCGGcUCGUGGUCGUa--CgCGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 73211 0.71 0.578165
Target:  5'- cGACcCCGAGCGCCuGCGgcgccucUGCGCGCc- -3'
miRNA:   3'- -CUGcGGCUCGUGGuCGU-------ACGCGUGuu -5'
14235 5' -58.3 NC_003521.1 + 64743 0.71 0.599049
Target:  5'- gGACGCCGuGGCcaagacGCCGGCcgGCGCGgCAc -3'
miRNA:   3'- -CUGCGGC-UCG------UGGUCGuaCGCGU-GUu -5'
14235 5' -58.3 NC_003521.1 + 116367 0.71 0.609035
Target:  5'- cGAgGCCGAGCugCuGC-UGCcGCGCGAc -3'
miRNA:   3'- -CUgCGGCUCGugGuCGuACG-CGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 226029 0.72 0.543745
Target:  5'- cGGCGCCGAaccaguccagcaGCACCAGCAccucggccacgaagGCGCGCc- -3'
miRNA:   3'- -CUGCGGCU------------CGUGGUCGUa-------------CGCGUGuu -5'
14235 5' -58.3 NC_003521.1 + 74825 0.72 0.520532
Target:  5'- cGGCGCCGAGCGCgaCGGCGUcccgcccucacGCuGCACGAc -3'
miRNA:   3'- -CUGCGGCUCGUG--GUCGUA-----------CG-CGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 102020 0.73 0.492082
Target:  5'- cGugGuuGAGCACCugGGCcacgGCGCGCAGc -3'
miRNA:   3'- -CugCggCUCGUGG--UCGua--CGCGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 77273 0.78 0.258719
Target:  5'- -cCGCCGGGCACCAGCAgggugGaguaGCACAGg -3'
miRNA:   3'- cuGCGGCUCGUGGUCGUa----Cg---CGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 211395 0.77 0.303183
Target:  5'- aGGCGCCGGcucucguGCAgCAGCcgGCGCACAu -3'
miRNA:   3'- -CUGCGGCU-------CGUgGUCGuaCGCGUGUu -5'
14235 5' -58.3 NC_003521.1 + 84670 0.76 0.347197
Target:  5'- aGGCGUCGcagcAGCGCCAGCAgcUGCGUGCAc -3'
miRNA:   3'- -CUGCGGC----UCGUGGUCGU--ACGCGUGUu -5'
14235 5' -58.3 NC_003521.1 + 216195 0.76 0.347197
Target:  5'- aGGCGCUGAGCACCGGCGcgggguccuccUG-GCACAc -3'
miRNA:   3'- -CUGCGGCUCGUGGUCGU-----------ACgCGUGUu -5'
14235 5' -58.3 NC_003521.1 + 71788 0.76 0.347197
Target:  5'- cGCGCCGAGaccagcuugACCGGCGcGCGCACAAa -3'
miRNA:   3'- cUGCGGCUCg--------UGGUCGUaCGCGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 129992 0.75 0.36259
Target:  5'- -cUGCCGcuGCGCCGGCGgcgGCGCGCAAc -3'
miRNA:   3'- cuGCGGCu-CGUGGUCGUa--CGCGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 145369 0.75 0.36259
Target:  5'- uGAUGCaCGGGCGCgAGCcgGUGCGCGAc -3'
miRNA:   3'- -CUGCG-GCUCGUGgUCGuaCGCGUGUU- -5'
14235 5' -58.3 NC_003521.1 + 54077 0.74 0.437496
Target:  5'- -cCGCCGAGCcCCAGCAUGgGCuCGc -3'
miRNA:   3'- cuGCGGCUCGuGGUCGUACgCGuGUu -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.