miRNA display CGI


Results 1 - 20 of 29 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
26531 3' -60.2 NC_005357.1 + 42221 0.66 0.366978
Target:  5'- uGCGCCaguuCGCCGU--GUCGcCCGGCAg -3'
miRNA:   3'- uUGCGG----GUGGCGucUAGCaGGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 27998 0.66 0.366978
Target:  5'- -uCGCCCaacacgguGCCGCAGGcgCGcCUGGCGa -3'
miRNA:   3'- uuGCGGG--------UGGCGUCUa-GCaGGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 27435 0.66 0.366978
Target:  5'- cGCGCCCggcgGCCGCAGGcccuggCG-CUGGUAUg -3'
miRNA:   3'- uUGCGGG----UGGCGUCUa-----GCaGGCCGUA- -5'
26531 3' -60.2 NC_005357.1 + 25830 0.66 0.349898
Target:  5'- cGGCGCcaacaCCAUCGCGuGGucggccUCGUCCGGCGc -3'
miRNA:   3'- -UUGCG-----GGUGGCGU-CU------AGCAGGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 13385 0.66 0.341573
Target:  5'- cAUGCCCAgCGCGcGGUUGUaggCGGCAUc -3'
miRNA:   3'- uUGCGGGUgGCGU-CUAGCAg--GCCGUA- -5'
26531 3' -60.2 NC_005357.1 + 1168 0.66 0.341573
Target:  5'- cACGCCCcacauagucucGCCGCcgGGGUCGgCCGGguUg -3'
miRNA:   3'- uUGCGGG-----------UGGCG--UCUAGCaGGCCguA- -5'
26531 3' -60.2 NC_005357.1 + 35013 0.66 0.339925
Target:  5'- gGGCGCCCGCUGCucuauacccUGUCCGGUc- -3'
miRNA:   3'- -UUGCGGGUGGCGucua-----GCAGGCCGua -5'
26531 3' -60.2 NC_005357.1 + 33614 0.66 0.333392
Target:  5'- --gGCCCgACCcaGCAGAUCGguacugaCCGGCGc -3'
miRNA:   3'- uugCGGG-UGG--CGUCUAGCa------GGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 39688 0.66 0.333392
Target:  5'- cACGCCCgagcagcgccggGCCGCGcucaagCGUCCGGCc- -3'
miRNA:   3'- uUGCGGG------------UGGCGUcua---GCAGGCCGua -5'
26531 3' -60.2 NC_005357.1 + 621 0.66 0.325355
Target:  5'- --aGCagCGCCGUGGAcacggCGUCCGGCGUc -3'
miRNA:   3'- uugCGg-GUGGCGUCUa----GCAGGCCGUA- -5'
26531 3' -60.2 NC_005357.1 + 33704 0.66 0.325355
Target:  5'- cGCGCCCGCCggGCAcAUCuucguGUUCGGCAg -3'
miRNA:   3'- uUGCGGGUGG--CGUcUAG-----CAGGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 41600 0.66 0.325355
Target:  5'- -cUGCCCACCugGCcGA-CGUUCGGCAa -3'
miRNA:   3'- uuGCGGGUGG--CGuCUaGCAGGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 24160 0.67 0.317464
Target:  5'- uGACgGCCgGCaaguucucggCGCAGGUCGUgaCCGGCAUc -3'
miRNA:   3'- -UUG-CGGgUG----------GCGUCUAGCA--GGCCGUA- -5'
26531 3' -60.2 NC_005357.1 + 12352 0.67 0.309717
Target:  5'- uGGCGCCCgggcGCCGCacaaaGGAUauuUCCGGCAc -3'
miRNA:   3'- -UUGCGGG----UGGCG-----UCUAgc-AGGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 24578 0.67 0.294658
Target:  5'- -cCGgCCACgGuCGGGcCGUCCGGCGUg -3'
miRNA:   3'- uuGCgGGUGgC-GUCUaGCAGGCCGUA- -5'
26531 3' -60.2 NC_005357.1 + 23434 0.67 0.280175
Target:  5'- cGACGCCgGCCgggauGCGGAUgGUUCGcGCGUa -3'
miRNA:   3'- -UUGCGGgUGG-----CGUCUAgCAGGC-CGUA- -5'
26531 3' -60.2 NC_005357.1 + 28649 0.67 0.280175
Target:  5'- cGCGCgCAgUGcCAGAUCGgugCCGGCGg -3'
miRNA:   3'- uUGCGgGUgGC-GUCUAGCa--GGCCGUa -5'
26531 3' -60.2 NC_005357.1 + 10280 0.68 0.273149
Target:  5'- gGAUGCCC--UGUAGGUCGUCCaGCAc -3'
miRNA:   3'- -UUGCGGGugGCGUCUAGCAGGcCGUa -5'
26531 3' -60.2 NC_005357.1 + 13289 0.68 0.266264
Target:  5'- cAGCGCCgAUUGCAGcgCGccggggCCGGCGUu -3'
miRNA:   3'- -UUGCGGgUGGCGUCuaGCa-----GGCCGUA- -5'
26531 3' -60.2 NC_005357.1 + 33438 0.68 0.259521
Target:  5'- cACGgCCACCGCuGG-CGaaUCCGGCAc -3'
miRNA:   3'- uUGCgGGUGGCGuCUaGC--AGGCCGUa -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.