miRNA display CGI


Results 1 - 20 of 35 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
26996 3' -57.8 NC_005809.1 + 1146 0.7 0.25748
Target:  5'- gCGGCCGUUugcGCUCGccGUCGAUGGUGAa -3'
miRNA:   3'- -GCCGGCGA---CGAGUacUAGCUGCCGUU- -5'
26996 3' -57.8 NC_005809.1 + 1329 0.67 0.431522
Target:  5'- aGGCCGacaagcgcgaggaaGC-CGUGGUCGGCGGCc- -3'
miRNA:   3'- gCCGGCga------------CGaGUACUAGCUGCCGuu -5'
26996 3' -57.8 NC_005809.1 + 2556 0.67 0.392688
Target:  5'- gGGCCGC-GCUCGUaAUUGcCGGCu- -3'
miRNA:   3'- gCCGGCGaCGAGUAcUAGCuGCCGuu -5'
26996 3' -57.8 NC_005809.1 + 4354 0.71 0.224497
Target:  5'- uGGCCGUUGCguugccggugcgCGUGAaggCGACGGCc- -3'
miRNA:   3'- gCCGGCGACGa-----------GUACUa--GCUGCCGuu -5'
26996 3' -57.8 NC_005809.1 + 4872 0.67 0.430548
Target:  5'- aGGUCGUUGCcCAgcgcggCGACGGCGg -3'
miRNA:   3'- gCCGGCGACGaGUacua--GCUGCCGUu -5'
26996 3' -57.8 NC_005809.1 + 7543 0.66 0.480739
Target:  5'- uCGGCgGCgUGCUC--GAUCuGCGGCGc -3'
miRNA:   3'- -GCCGgCG-ACGAGuaCUAGcUGCCGUu -5'
26996 3' -57.8 NC_005809.1 + 8628 0.74 0.154011
Target:  5'- uCGGCCGCUGCgguggCGaGGUCGcCGGCc- -3'
miRNA:   3'- -GCCGGCGACGa----GUaCUAGCuGCCGuu -5'
26996 3' -57.8 NC_005809.1 + 9736 0.66 0.450264
Target:  5'- gCGGgCGaaCUGCUCGUGGUgGGCGcGCu- -3'
miRNA:   3'- -GCCgGC--GACGAGUACUAgCUGC-CGuu -5'
26996 3' -57.8 NC_005809.1 + 10501 0.67 0.411348
Target:  5'- gGGCCG-UGCUCuUGAUCGAacugcugaccgcCGGCc- -3'
miRNA:   3'- gCCGGCgACGAGuACUAGCU------------GCCGuu -5'
26996 3' -57.8 NC_005809.1 + 12239 0.66 0.480739
Target:  5'- cCGGCaacaGCgGCaUCGaacgGAUCGGCGGUAGu -3'
miRNA:   3'- -GCCGg---CGaCG-AGUa---CUAGCUGCCGUU- -5'
26996 3' -57.8 NC_005809.1 + 13014 0.69 0.331864
Target:  5'- aGGCCGCgcaGCgcaGUGG-CGACGGCc- -3'
miRNA:   3'- gCCGGCGa--CGag-UACUaGCUGCCGuu -5'
26996 3' -57.8 NC_005809.1 + 13618 0.76 0.095017
Target:  5'- uCGGCauguCGCUGCaUCAUGAguUCGAUGGCAGc -3'
miRNA:   3'- -GCCG----GCGACG-AGUACU--AGCUGCCGUU- -5'
26996 3' -57.8 NC_005809.1 + 13767 0.7 0.264261
Target:  5'- aCGGCgcgcugGCUGCUCAaGAUCGGCaaccagGGCAAg -3'
miRNA:   3'- -GCCGg-----CGACGAGUaCUAGCUG------CCGUU- -5'
26996 3' -57.8 NC_005809.1 + 16148 0.74 0.141608
Target:  5'- gCGGCCGCacGCUgAUGGUgGugGGCGu -3'
miRNA:   3'- -GCCGGCGa-CGAgUACUAgCugCCGUu -5'
26996 3' -57.8 NC_005809.1 + 17042 0.67 0.401949
Target:  5'- gGGgCGCUGC-CGg---CGGCGGCAAa -3'
miRNA:   3'- gCCgGCGACGaGUacuaGCUGCCGUU- -5'
26996 3' -57.8 NC_005809.1 + 18572 0.69 0.308001
Target:  5'- aGGCCGC-GCUCGcGGU-GACGGCc- -3'
miRNA:   3'- gCCGGCGaCGAGUaCUAgCUGCCGuu -5'
26996 3' -57.8 NC_005809.1 + 18795 0.73 0.167391
Target:  5'- aGGCCGCcaccuUGUUgGUGAUCuGGCGGCGc -3'
miRNA:   3'- gCCGGCG-----ACGAgUACUAG-CUGCCGUu -5'
26996 3' -57.8 NC_005809.1 + 19501 0.7 0.271185
Target:  5'- aGGCCGCUGCgaacCGUGGUCuugugcuCGGUGAa -3'
miRNA:   3'- gCCGGCGACGa---GUACUAGcu-----GCCGUU- -5'
26996 3' -57.8 NC_005809.1 + 22372 0.66 0.460306
Target:  5'- gCGGgCGCUGC-CAaGAcCGAgGGCGAc -3'
miRNA:   3'- -GCCgGCGACGaGUaCUaGCUgCCGUU- -5'
26996 3' -57.8 NC_005809.1 + 25149 0.68 0.348514
Target:  5'- gGGCCaCUGCUCAaGGgcgaCGugGGCGc -3'
miRNA:   3'- gCCGGcGACGAGUaCUa---GCugCCGUu -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.