miRNA display CGI


Results 1 - 20 of 60 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
27563 3' -58 NC_005882.1 + 4793 1.06 0.000524
Target:  5'- gCAGCUCGACGCGAUCGUCGCCGAGCUu -3'
miRNA:   3'- -GUCGAGCUGCGCUAGCAGCGGCUCGA- -5'
27563 3' -58 NC_005882.1 + 25568 0.68 0.336114
Target:  5'- cCGGC-CGAgGCGGUCGUacugGCCGcGCa -3'
miRNA:   3'- -GUCGaGCUgCGCUAGCAg---CGGCuCGa -5'
27563 3' -58 NC_005882.1 + 32776 0.67 0.41568
Target:  5'- gCAGCaacgccgcuugaUCGugGUGAUCG-CGCgauCGAGCa -3'
miRNA:   3'- -GUCG------------AGCugCGCUAGCaGCG---GCUCGa -5'
27563 3' -58 NC_005882.1 + 33052 0.66 0.478804
Target:  5'- -uGCUCGACcugcgccuucagguaGCGcgUGcggcCGCCGAGCUg -3'
miRNA:   3'- guCGAGCUG---------------CGCuaGCa---GCGGCUCGA- -5'
27563 3' -58 NC_005882.1 + 29391 0.71 0.241825
Target:  5'- -cGCcacgCGAgcCGCGAUCGUCGCC-AGCg -3'
miRNA:   3'- guCGa---GCU--GCGCUAGCAGCGGcUCGa -5'
27563 3' -58 NC_005882.1 + 21881 0.7 0.254756
Target:  5'- gCAGCUUGACGCGca----GCCGGGCg -3'
miRNA:   3'- -GUCGAGCUGCGCuagcagCGGCUCGa -5'
27563 3' -58 NC_005882.1 + 27865 0.7 0.261431
Target:  5'- -cGCUCGcgcuuCGCGAgcagGUCGUCGAGCa -3'
miRNA:   3'- guCGAGCu----GCGCUag--CAGCGGCUCGa -5'
27563 3' -58 NC_005882.1 + 30260 0.7 0.268249
Target:  5'- uCAGC-CGuACGCGcgCGaaGCCGGGCUu -3'
miRNA:   3'- -GUCGaGC-UGCGCuaGCagCGGCUCGA- -5'
27563 3' -58 NC_005882.1 + 11987 0.69 0.31218
Target:  5'- gCGGCcacgGGCGCGG-CGgCGCCGAGCa -3'
miRNA:   3'- -GUCGag--CUGCGCUaGCaGCGGCUCGa -5'
27563 3' -58 NC_005882.1 + 7854 0.68 0.336114
Target:  5'- -cGCUUGAgGCGAUgGgguUCGCgGAGCg -3'
miRNA:   3'- guCGAGCUgCGCUAgC---AGCGgCUCGa -5'
27563 3' -58 NC_005882.1 + 21183 0.69 0.320011
Target:  5'- -cGC-CGACaucgGCGGUCGUuucggcaaCGCCGAGCg -3'
miRNA:   3'- guCGaGCUG----CGCUAGCA--------GCGGCUCGa -5'
27563 3' -58 NC_005882.1 + 19922 0.69 0.302217
Target:  5'- cCAGCUCGGCGCGcuUCGgaucgacguucUCGCCGuacucgacggugucGGCg -3'
miRNA:   3'- -GUCGAGCUGCGCu-AGC-----------AGCGGC--------------UCGa -5'
27563 3' -58 NC_005882.1 + 12028 0.75 0.118771
Target:  5'- uCAGCUCGGCGCGGUaCGccagcgccUCGgCGGGCa -3'
miRNA:   3'- -GUCGAGCUGCGCUA-GC--------AGCgGCUCGa -5'
27563 3' -58 NC_005882.1 + 19609 0.68 0.336114
Target:  5'- -cGCUC-ACGCGccugcgCGUCGgCGAGCUg -3'
miRNA:   3'- guCGAGcUGCGCua----GCAGCgGCUCGA- -5'
27563 3' -58 NC_005882.1 + 3629 0.75 0.125667
Target:  5'- cCAGCacgCGACGCGAUCGU-GCCGAaacggugucGCUg -3'
miRNA:   3'- -GUCGa--GCUGCGCUAGCAgCGGCU---------CGA- -5'
27563 3' -58 NC_005882.1 + 13448 0.69 0.28883
Target:  5'- aAGUuuUCGaaucugaGCGCGAUCG-CGUCGAGCUu -3'
miRNA:   3'- gUCG--AGC-------UGCGCUAGCaGCGGCUCGA- -5'
27563 3' -58 NC_005882.1 + 662 0.68 0.336114
Target:  5'- cCAGCUCgGGCGCGAga-UUGCCGAccGCa -3'
miRNA:   3'- -GUCGAG-CUGCGCUagcAGCGGCU--CGa -5'
27563 3' -58 NC_005882.1 + 12686 0.68 0.344384
Target:  5'- gAGCUUGGCGaccuucgCGUCGCCG-GCa -3'
miRNA:   3'- gUCGAGCUGCgcua---GCAGCGGCuCGa -5'
27563 3' -58 NC_005882.1 + 24124 0.72 0.206292
Target:  5'- gCAGCUCGACcuugcCGAUCa-UGCCGAGCg -3'
miRNA:   3'- -GUCGAGCUGc----GCUAGcaGCGGCUCGa -5'
27563 3' -58 NC_005882.1 + 21766 0.7 0.254756
Target:  5'- -cGCcCGGCuCGggCGUCGCCGGGCc -3'
miRNA:   3'- guCGaGCUGcGCuaGCAGCGGCUCGa -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.