miRNA display CGI


Results 1 - 20 of 23 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
20606 5' -61.7 NC_004688.1 + 13483 0.66 0.584227
Target:  5'- aGUacgaCGCC---GGCACCagcGCGCCCGACu -3'
miRNA:   3'- aCAg---GCGGaccUCGUGG---CGUGGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 73780 0.66 0.574223
Target:  5'- --aCCGCCaUGGcGGC-CCauGUGCCCGACg -3'
miRNA:   3'- acaGGCGG-ACC-UCGuGG--CGUGGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 84865 0.66 0.57123
Target:  5'- gGUCCGCCUGccauacccccGGGCaugccgaggagcugACCG-GCCUGACg -3'
miRNA:   3'- aCAGGCGGAC----------CUCG--------------UGGCgUGGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 28146 0.66 0.56426
Target:  5'- gUGgagCCGUCgGGcAGCGCaCGCGCCCcACc -3'
miRNA:   3'- -ACa--GGCGGaCC-UCGUG-GCGUGGGcUG- -5'
20606 5' -61.7 NC_004688.1 + 76940 0.66 0.554342
Target:  5'- aG-CCGCCaccaGGAGCGCCauugcCGCCgGACu -3'
miRNA:   3'- aCaGGCGGa---CCUCGUGGc----GUGGgCUG- -5'
20606 5' -61.7 NC_004688.1 + 7140 0.66 0.53467
Target:  5'- gGUgCGCCaaaUGGAGCGCCGUAag-GACu -3'
miRNA:   3'- aCAgGCGG---ACCUCGUGGCGUgggCUG- -5'
20606 5' -61.7 NC_004688.1 + 46823 0.67 0.524925
Target:  5'- -aUCCGCCUGG-GCAg-GgACCUGACa -3'
miRNA:   3'- acAGGCGGACCuCGUggCgUGGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 31027 0.67 0.522015
Target:  5'- cGUCgGCCgagugggcccaaggUGcGAGCACCcUACCUGGCa -3'
miRNA:   3'- aCAGgCGG--------------AC-CUCGUGGcGUGGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 61699 0.67 0.490444
Target:  5'- -uUCuCGCCgggUGGAgugaugaggugcgccGCGCCGCGgCCGACg -3'
miRNA:   3'- acAG-GCGG---ACCU---------------CGUGGCGUgGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 86650 0.67 0.477319
Target:  5'- cGUCgCGCCcgUGGGG-ACCGUugCCGGu -3'
miRNA:   3'- aCAG-GCGG--ACCUCgUGGCGugGGCUg -5'
20606 5' -61.7 NC_004688.1 + 24147 0.68 0.458877
Target:  5'- cGUCUGCCccGGGcuuccGUACUGCGCCCuGAUg -3'
miRNA:   3'- aCAGGCGGa-CCU-----CGUGGCGUGGG-CUG- -5'
20606 5' -61.7 NC_004688.1 + 42125 0.68 0.456143
Target:  5'- gUGUcCCGCCUGuGcuugguugucauccGCGCCGCAaguUCCGACa -3'
miRNA:   3'- -ACA-GGCGGACcU--------------CGUGGCGU---GGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 49495 0.68 0.439929
Target:  5'- gGUCUGCCaccccUGGAGaaggucgaaGCCGUgaauaccGCCCGGCa -3'
miRNA:   3'- aCAGGCGG-----ACCUCg--------UGGCG-------UGGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 54360 0.68 0.423176
Target:  5'- aGUCCGCCUcGGccucaagccAGCGCUgcagggucaggGCGCgCCGGCg -3'
miRNA:   3'- aCAGGCGGA-CC---------UCGUGG-----------CGUG-GGCUG- -5'
20606 5' -61.7 NC_004688.1 + 107942 0.69 0.414513
Target:  5'- cG-CCGCCUGGAGCuguagGCCcaGCugUUGACc -3'
miRNA:   3'- aCaGGCGGACCUCG-----UGG--CGugGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 37353 0.69 0.39752
Target:  5'- ---aCGCCUGcGAGCcuuggugcacGCCGCGCCCuGCg -3'
miRNA:   3'- acagGCGGAC-CUCG----------UGGCGUGGGcUG- -5'
20606 5' -61.7 NC_004688.1 + 44491 0.69 0.39752
Target:  5'- aUGUCUuCCUGGGGaaCGCCGUGCuuGGCc -3'
miRNA:   3'- -ACAGGcGGACCUC--GUGGCGUGggCUG- -5'
20606 5' -61.7 NC_004688.1 + 29102 0.69 0.380981
Target:  5'- cGUCCucgGCCgcgccGGGCcuAUCGCACCCGACc -3'
miRNA:   3'- aCAGG---CGGac---CUCG--UGGCGUGGGCUG- -5'
20606 5' -61.7 NC_004688.1 + 107242 0.7 0.364908
Target:  5'- gGUCgGCCUGGAGUACCccguUACCCc-- -3'
miRNA:   3'- aCAGgCGGACCUCGUGGc---GUGGGcug -5'
20606 5' -61.7 NC_004688.1 + 68856 0.7 0.340935
Target:  5'- aUGUCCgGCCUGGgcggcggGGuCGCCGguCCgGACg -3'
miRNA:   3'- -ACAGG-CGGACC-------UC-GUGGCguGGgCUG- -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.