miRNA display CGI


Results 1 - 20 of 66 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
26609 3' -55.3 NC_005357.1 + 28544 0.66 0.685843
Target:  5'- cGGCA-CGACCUUG-CGgcCGccGGCCa- -3'
miRNA:   3'- -CCGUaGCUGGAACuGC--GCuaCCGGcu -5'
26609 3' -55.3 NC_005357.1 + 14198 0.66 0.685843
Target:  5'- cGCAgucCGACCc--GCGCGuggucgucggcGUGGCCGAc -3'
miRNA:   3'- cCGUa--GCUGGaacUGCGC-----------UACCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 18405 0.66 0.674815
Target:  5'- cGCGUCG-CCUU--CGCuGAauUGGCCGAc -3'
miRNA:   3'- cCGUAGCuGGAAcuGCG-CU--ACCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 31290 0.66 0.674815
Target:  5'- uGGCAgcgaagccuggCGACC---GCGUGGUGGCCc- -3'
miRNA:   3'- -CCGUa----------GCUGGaacUGCGCUACCGGcu -5'
26609 3' -55.3 NC_005357.1 + 34946 0.66 0.671498
Target:  5'- gGGCgcgGUCGAUCUggucgaguccUGgugcaaggccauucGCGCGAaGGCCGAa -3'
miRNA:   3'- -CCG---UAGCUGGA----------AC--------------UGCGCUaCCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 41957 0.66 0.663747
Target:  5'- aGGCAUcCGACCgcGACaGCGcccgcaagcUGGCCGc -3'
miRNA:   3'- -CCGUA-GCUGGaaCUG-CGCu--------ACCGGCu -5'
26609 3' -55.3 NC_005357.1 + 16142 0.66 0.663747
Target:  5'- uGGCAUCcAUCgc-GCGCGAUGcgcgaGCCGAc -3'
miRNA:   3'- -CCGUAGcUGGaacUGCGCUAC-----CGGCU- -5'
26609 3' -55.3 NC_005357.1 + 33967 0.66 0.663747
Target:  5'- cGGCAUCGcaggccACCUcGACGCcGAcaucGcGCCGAu -3'
miRNA:   3'- -CCGUAGC------UGGAaCUGCG-CUa---C-CGGCU- -5'
26609 3' -55.3 NC_005357.1 + 41913 0.66 0.652648
Target:  5'- aGGUuUCGGCCa----GCGAUGGCCc- -3'
miRNA:   3'- -CCGuAGCUGGaacugCGCUACCGGcu -5'
26609 3' -55.3 NC_005357.1 + 38987 0.66 0.652648
Target:  5'- cGGCGUCuguGACCaccugauucUUGAguaGCGG-GGCCGAa -3'
miRNA:   3'- -CCGUAG---CUGG---------AACUg--CGCUaCCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 12631 0.66 0.64153
Target:  5'- cGGCAUCGAgCgcgaGACaGCGuauGCCGAa -3'
miRNA:   3'- -CCGUAGCUgGaa--CUG-CGCuacCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 19193 0.66 0.64153
Target:  5'- cGGCGUCGA---UGAUGUucUGGCCGu -3'
miRNA:   3'- -CCGUAGCUggaACUGCGcuACCGGCu -5'
26609 3' -55.3 NC_005357.1 + 41411 0.66 0.638192
Target:  5'- aGCAUggccgaguauuuccCGGCCagUGGCGCGGgcagcgGGCUGAc -3'
miRNA:   3'- cCGUA--------------GCUGGa-ACUGCGCUa-----CCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 13942 0.66 0.634854
Target:  5'- cGGCAaugccgagcggaugcUCGACCacuACGCGAcGGCCu- -3'
miRNA:   3'- -CCGU---------------AGCUGGaacUGCGCUaCCGGcu -5'
26609 3' -55.3 NC_005357.1 + 12943 0.66 0.630403
Target:  5'- uGGaCA-CGACC--GACGCGGaacUGGCCGc -3'
miRNA:   3'- -CC-GUaGCUGGaaCUGCGCU---ACCGGCu -5'
26609 3' -55.3 NC_005357.1 + 13439 0.67 0.62039
Target:  5'- cGGCAggcccgccagcuuggCGGCCUcgGGCGCGGUG-UCGGg -3'
miRNA:   3'- -CCGUa--------------GCUGGAa-CUGCGCUACcGGCU- -5'
26609 3' -55.3 NC_005357.1 + 8828 0.67 0.608164
Target:  5'- uGGUGUCGGCCUUGAuacCGUccucGCCGAc -3'
miRNA:   3'- -CCGUAGCUGGAACU---GCGcuacCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 25908 0.67 0.608164
Target:  5'- aGGCGgguuUCGACUUgcagcuUGCGGUGGCCc- -3'
miRNA:   3'- -CCGU----AGCUGGAacu---GCGCUACCGGcu -5'
26609 3' -55.3 NC_005357.1 + 8460 0.67 0.597071
Target:  5'- cGGCGUCGAgg-UGGCcuGCGAUGccgcaGCCGAc -3'
miRNA:   3'- -CCGUAGCUggaACUG--CGCUAC-----CGGCU- -5'
26609 3' -55.3 NC_005357.1 + 18374 0.67 0.597071
Target:  5'- cGGCgagGUUGGCCUugccgaUGGCGCcGGUGGCgGc -3'
miRNA:   3'- -CCG---UAGCUGGA------ACUGCG-CUACCGgCu -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.