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
1525 5' -56.6 NC_001335.1 + 17146 0.69 0.47681
Target:  5'- cGGCGCUGGCgACGG-CC-CUCGG--CCa -3'
miRNA:   3'- -CCGUGGCCG-UGCUaGGaGAGCCuaGG- -5'
1525 5' -56.6 NC_001335.1 + 25128 0.71 0.369279
Target:  5'- uGGCGCUGGCGgcugccuucuucgccCGGUCCUgUggagGGGUCCa -3'
miRNA:   3'- -CCGUGGCCGU---------------GCUAGGAgAg---CCUAGG- -5'
1525 5' -56.6 NC_001335.1 + 26696 0.73 0.295153
Target:  5'- gGGCAUCaGCGCGGUCCUCcgugcuucaUCGGuugucUCCc -3'
miRNA:   3'- -CCGUGGcCGUGCUAGGAG---------AGCCu----AGG- -5'
1525 5' -56.6 NC_001335.1 + 16955 0.75 0.218036
Target:  5'- uGGCgagcacGCCGGCACGAUgCUCacCGGAgcccUCCa -3'
miRNA:   3'- -CCG------UGGCCGUGCUAgGAGa-GCCU----AGG- -5'
1525 5' -56.6 NC_001335.1 + 40126 0.75 0.218036
Target:  5'- gGGCucuCCGGguCGAUCCgCUugUGGGUCCa -3'
miRNA:   3'- -CCGu--GGCCguGCUAGGaGA--GCCUAGG- -5'
1525 5' -56.6 NC_001335.1 + 42338 0.78 0.131357
Target:  5'- cGGCcgACCGGCGCGAgccgcgugCgUCUCGGcGUCCa -3'
miRNA:   3'- -CCG--UGGCCGUGCUa-------GgAGAGCC-UAGG- -5'
1525 5' -56.6 NC_001335.1 + 51572 1.15 0.000333
Target:  5'- cGGCACCGGCACGAUCCUCUCGGAUCCg -3'
miRNA:   3'- -CCGUGGCCGUGCUAGGAGAGCCUAGG- -5'
1525 5' -56.6 NC_001335.1 + 32629 0.66 0.666689
Target:  5'- --gGCCGGCGCgGAUCCaC-CGGAgCCu -3'
miRNA:   3'- ccgUGGCCGUG-CUAGGaGaGCCUaGG- -5'
1525 5' -56.6 NC_001335.1 + 7506 0.66 0.666689
Target:  5'- aGCGCCGGC-CGAcaccccggUCUC-CGaGAUCCc -3'
miRNA:   3'- cCGUGGCCGuGCUa-------GGAGaGC-CUAGG- -5'
1525 5' -56.6 NC_001335.1 + 2198 0.67 0.591248
Target:  5'- gGGCGgUGGCGagggucucgaGAUCCUCaacuacgaGGGUCCa -3'
miRNA:   3'- -CCGUgGCCGUg---------CUAGGAGag------CCUAGG- -5'
1525 5' -56.6 NC_001335.1 + 18097 0.68 0.537116
Target:  5'- cGCACCGGUcgacuucgcgaaaGCGAcuggcaagcaguUCCUUUCGGAcaUCg -3'
miRNA:   3'- cCGUGGCCG-------------UGCU------------AGGAGAGCCU--AGg -5'
1525 5' -56.6 NC_001335.1 + 48814 0.68 0.559236
Target:  5'- cGGCgACCGGaCGCGGUagCUUCUCcGGUCa -3'
miRNA:   3'- -CCG-UGGCC-GUGCUA--GGAGAGcCUAGg -5'
1525 5' -56.6 NC_001335.1 + 41609 0.67 0.623556
Target:  5'- cGGCcCCaGGCGuCGAUCCcCacgUGGAUCUg -3'
miRNA:   3'- -CCGuGG-CCGU-GCUAGGaGa--GCCUAGG- -5'
1525 5' -56.6 NC_001335.1 + 28394 0.7 0.419124
Target:  5'- cGCACCGGCgGCGuacaccUCCUCgucguUCGGccAUCCg -3'
miRNA:   3'- cCGUGGCCG-UGCu-----AGGAG-----AGCC--UAGG- -5'
1525 5' -56.6 NC_001335.1 + 37126 0.67 0.590175
Target:  5'- uGGCGuuGGUgACGGUCUUCacaUCGGcaggaacGUCCa -3'
miRNA:   3'- -CCGUggCCG-UGCUAGGAG---AGCC-------UAGG- -5'
1525 5' -56.6 NC_001335.1 + 9876 0.68 0.559236
Target:  5'- cGGCugUGGCuucgGCGGUgCCguggggCUCGGGgagCCu -3'
miRNA:   3'- -CCGugGCCG----UGCUA-GGa-----GAGCCUa--GG- -5'
1525 5' -56.6 NC_001335.1 + 42315 0.75 0.206995
Target:  5'- --gACCGGCACGAuUCCUgCUgCGGAUUCg -3'
miRNA:   3'- ccgUGGCCGUGCU-AGGA-GA-GCCUAGG- -5'
1525 5' -56.6 NC_001335.1 + 435 0.73 0.302458
Target:  5'- cGCACUGGCGCGG-CCUUga-GAUCCg -3'
miRNA:   3'- cCGUGGCCGUGCUaGGAGagcCUAGG- -5'
1525 5' -56.6 NC_001335.1 + 31751 0.71 0.357468
Target:  5'- aGGCccGCUGGCACGAggCCg--CGGAUgCCg -3'
miRNA:   3'- -CCG--UGGCCGUGCUa-GGagaGCCUA-GG- -5'
1525 5' -56.6 NC_001335.1 + 13095 0.66 0.665614
Target:  5'- cGCACCGGCACaccggagGAUCagcUUCGuGAUCg -3'
miRNA:   3'- cCGUGGCCGUG-------CUAGga-GAGC-CUAGg -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.