miRNA display CGI


Results 1 - 20 of 32 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
29128 5' -60.1 NC_006146.1 + 33380 0.68 0.63515
Target:  5'- cGGGCCgCUGCCCcgCUCcggguggGGGGUggcCCGCc -3'
miRNA:   3'- -CCUGG-GACGGGa-GAGa------CUCCA---GGCGu -5'
29128 5' -60.1 NC_006146.1 + 55712 0.69 0.615399
Target:  5'- gGGGCUCUGCCCgccgCUGGccUCCGCGu -3'
miRNA:   3'- -CCUGGGACGGGaga-GACUccAGGCGU- -5'
29128 5' -60.1 NC_006146.1 + 158833 0.69 0.596679
Target:  5'- gGGGCCCgGCCCUCgcaaagcgagcacaUGGGGcugguggCCGCAc -3'
miRNA:   3'- -CCUGGGaCGGGAGag------------ACUCCa------GGCGU- -5'
29128 5' -60.1 NC_006146.1 + 39057 0.69 0.579024
Target:  5'- gGGGCCCUGUgaauggucgccggCCUCcggUCUGGGGaaggccagggccauuUCCGCGa -3'
miRNA:   3'- -CCUGGGACG-------------GGAG---AGACUCC---------------AGGCGU- -5'
29128 5' -60.1 NC_006146.1 + 142586 0.7 0.556636
Target:  5'- cGGAUuggCCUGUUgaUUCUCagguUGAGGUCCGCAu -3'
miRNA:   3'- -CCUG---GGACGG--GAGAG----ACUCCAGGCGU- -5'
29128 5' -60.1 NC_006146.1 + 151930 0.77 0.205664
Target:  5'- cGGCCCUgccGCCCUCUCUaGGGG-CCGCu -3'
miRNA:   3'- cCUGGGA---CGGGAGAGA-CUCCaGGCGu -5'
29128 5' -60.1 NC_006146.1 + 149495 1.09 0.001292
Target:  5'- gGGACCCUGCCCUCUCUGAGGUCCGCAu -3'
miRNA:   3'- -CCUGGGACGGGAGAGACUCCAGGCGU- -5'
29128 5' -60.1 NC_006146.1 + 46133 0.66 0.778722
Target:  5'- cGGGCCCUGgCCgugCUCUGAuuguGGaCCaGCc -3'
miRNA:   3'- -CCUGGGACgGGa--GAGACU----CCaGG-CGu -5'
29128 5' -60.1 NC_006146.1 + 33088 0.66 0.760564
Target:  5'- cGGCCCUGCgg-CUCUGGGGcagCCGgGu -3'
miRNA:   3'- cCUGGGACGggaGAGACUCCa--GGCgU- -5'
29128 5' -60.1 NC_006146.1 + 69654 0.66 0.760564
Target:  5'- uGGGCCCgcgGUCCUCcuccagCUGGGGggUgGCAu -3'
miRNA:   3'- -CCUGGGa--CGGGAGa-----GACUCCa-GgCGU- -5'
29128 5' -60.1 NC_006146.1 + 54100 0.67 0.683379
Target:  5'- uGGacGCCCUccaccacGCCCUUgagcgUCUGcAGGUCCGUg -3'
miRNA:   3'- -CC--UGGGA-------CGGGAG-----AGAC-UCCAGGCGu -5'
29128 5' -60.1 NC_006146.1 + 109172 0.68 0.63515
Target:  5'- cGGuCCCgGCCCUUagUCUGAGGcCCa-- -3'
miRNA:   3'- -CCuGGGaCGGGAG--AGACUCCaGGcgu -5'
29128 5' -60.1 NC_006146.1 + 161326 0.66 0.760564
Target:  5'- aGcCCCUGaCCCUgUCUguucaggccaaGAGGUCUGUAu -3'
miRNA:   3'- cCuGGGAC-GGGAgAGA-----------CUCCAGGCGU- -5'
29128 5' -60.1 NC_006146.1 + 155489 0.68 0.66474
Target:  5'- cGGGCCa-GCCC-CUCUGAGG-CCa-- -3'
miRNA:   3'- -CCUGGgaCGGGaGAGACUCCaGGcgu -5'
29128 5' -60.1 NC_006146.1 + 106048 0.66 0.741982
Target:  5'- aGACCCgaGCCCuUCUgcacCUGAGGcggcUCUGCGg -3'
miRNA:   3'- cCUGGGa-CGGG-AGA----GACUCC----AGGCGU- -5'
29128 5' -60.1 NC_006146.1 + 154898 0.66 0.778722
Target:  5'- aGGGCCUcGCCCgggCUGAccGcGUCCGCc -3'
miRNA:   3'- -CCUGGGaCGGGagaGACU--C-CAGGCGu -5'
29128 5' -60.1 NC_006146.1 + 157494 0.68 0.674565
Target:  5'- cGGGCCUUGCagaCCUggCUGAGGcagUCCGUg -3'
miRNA:   3'- -CCUGGGACG---GGAgaGACUCC---AGGCGu -5'
29128 5' -60.1 NC_006146.1 + 98459 0.69 0.615399
Target:  5'- -cGCCCggggGCCagUCUCUGGGucaGUCCGCGg -3'
miRNA:   3'- ccUGGGa---CGGg-AGAGACUC---CAGGCGU- -5'
29128 5' -60.1 NC_006146.1 + 52429 0.7 0.527829
Target:  5'- uGGCCuCUGCCCUCcagUUUGGGGUCgaCGCc -3'
miRNA:   3'- cCUGG-GACGGGAG---AGACUCCAG--GCGu -5'
29128 5' -60.1 NC_006146.1 + 51997 0.72 0.402665
Target:  5'- uGGACgccaaCCUGCUCUCgaacCUGAGGcagUCCGCGg -3'
miRNA:   3'- -CCUG-----GGACGGGAGa---GACUCC---AGGCGU- -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.