miRNA display CGI


Results 1 - 20 of 130 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
29938 3' -54.8 NC_006273.1 + 99848 0.69 0.906214
Target:  5'- -gGGAGGAGCGGcgGCGGCGA-UCAUuGGa -3'
miRNA:   3'- cgUCUCUUCGUC--UGCCGCUcGGUA-CC- -5'
29938 3' -54.8 NC_006273.1 + 102305 0.71 0.826213
Target:  5'- aCAGGGGcaacgcgGGCAGgucguGCGGCGGGUgGUGGu -3'
miRNA:   3'- cGUCUCU-------UCGUC-----UGCCGCUCGgUACC- -5'
29938 3' -54.8 NC_006273.1 + 55786 0.71 0.843202
Target:  5'- aGUAcGGGuAGCGGugGGCG-GCCgAUGGc -3'
miRNA:   3'- -CGU-CUCuUCGUCugCCGCuCGG-UACC- -5'
29938 3' -54.8 NC_006273.1 + 34939 0.7 0.866056
Target:  5'- aGCGGuGGAGguGGCGGCuGAuCCAcGGg -3'
miRNA:   3'- -CGUCuCUUCguCUGCCG-CUcGGUaCC- -5'
29938 3' -54.8 NC_006273.1 + 113735 0.7 0.87328
Target:  5'- cCGGAGGuGGCGacGGCGGCGGcGCCGUGc -3'
miRNA:   3'- cGUCUCU-UCGU--CUGCCGCU-CGGUACc -5'
29938 3' -54.8 NC_006273.1 + 37237 0.7 0.883044
Target:  5'- gGCAGAGGaaGGCGcGACGGCggcgacgacgaggagGAagacGCCGUGGc -3'
miRNA:   3'- -CGUCUCU--UCGU-CUGCCG---------------CU----CGGUACC- -5'
29938 3' -54.8 NC_006273.1 + 208239 0.7 0.887102
Target:  5'- uGUAGcGAcGGCAG-CGGCGGGuCCAUGa -3'
miRNA:   3'- -CGUCuCU-UCGUCuGCCGCUC-GGUACc -5'
29938 3' -54.8 NC_006273.1 + 133483 0.7 0.887102
Target:  5'- uGCAGgcgcGGAcGCuGGCGGCG-GCCcgGGc -3'
miRNA:   3'- -CGUC----UCUuCGuCUGCCGCuCGGuaCC- -5'
29938 3' -54.8 NC_006273.1 + 47483 0.69 0.893693
Target:  5'- aGCAgGAGAAc--GACGGCGAGCCGc-- -3'
miRNA:   3'- -CGU-CUCUUcguCUGCCGCUCGGUacc -5'
29938 3' -54.8 NC_006273.1 + 1191 0.72 0.801543
Target:  5'- gGCGGGGAcggggAGUugcgGGAUGGCGAGCUguugcGUGGc -3'
miRNA:   3'- -CGUCUCU-----UCG----UCUGCCGCUCGG-----UACC- -5'
29938 3' -54.8 NC_006273.1 + 148763 0.72 0.7838
Target:  5'- gGCAGGucuucgguaccGAGGCcGGCGGCGGcGCCGUGc -3'
miRNA:   3'- -CGUCU-----------CUUCGuCUGCCGCU-CGGUACc -5'
29938 3' -54.8 NC_006273.1 + 114086 0.73 0.74682
Target:  5'- gGC-GAG-AGCGGGCGGCG-GUgGUGGg -3'
miRNA:   3'- -CGuCUCuUCGUCUGCCGCuCGgUACC- -5'
29938 3' -54.8 NC_006273.1 + 230664 0.78 0.473419
Target:  5'- -uGGAGAgAGCAGGCGGacCGAGCCAgagGGa -3'
miRNA:   3'- cgUCUCU-UCGUCUGCC--GCUCGGUa--CC- -5'
29938 3' -54.8 NC_006273.1 + 30157 0.76 0.559239
Target:  5'- cGCcGAGu--CAGugGGCGAGCCcgGGg -3'
miRNA:   3'- -CGuCUCuucGUCugCCGCUCGGuaCC- -5'
29938 3' -54.8 NC_006273.1 + 196925 0.76 0.588897
Target:  5'- gGCGGGGAcGCGccgugcgcGAUGGCagGAGCCGUGGg -3'
miRNA:   3'- -CGUCUCUuCGU--------CUGCCG--CUCGGUACC- -5'
29938 3' -54.8 NC_006273.1 + 210883 0.75 0.628829
Target:  5'- -gAGAGAAGCuacccaAGACGGCcaccGCCGUGGa -3'
miRNA:   3'- cgUCUCUUCG------UCUGCCGcu--CGGUACC- -5'
29938 3' -54.8 NC_006273.1 + 74226 0.74 0.688637
Target:  5'- aCAGcAGAGGgAGACGGCGcAGCCAg-- -3'
miRNA:   3'- cGUC-UCUUCgUCUGCCGC-UCGGUacc -5'
29938 3' -54.8 NC_006273.1 + 72804 0.74 0.698496
Target:  5'- gGUAGAGccGCAGACGGCGcAGCa--GGu -3'
miRNA:   3'- -CGUCUCuuCGUCUGCCGC-UCGguaCC- -5'
29938 3' -54.8 NC_006273.1 + 79634 0.73 0.708302
Target:  5'- aGCAGGGuggaguAGCAGAgGuuGUGAGCCAUGa -3'
miRNA:   3'- -CGUCUCu-----UCGUCUgC--CGCUCGGUACc -5'
29938 3' -54.8 NC_006273.1 + 144750 0.73 0.718045
Target:  5'- uGCAGAacgugcugcgGAGGCAcgacGCGGCG-GCCGUGGc -3'
miRNA:   3'- -CGUCU----------CUUCGUc---UGCCGCuCGGUACC- -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.