miRNA display CGI


Results 1 - 20 of 21 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
28169 3' -58.4 NC_005887.1 + 21653 0.66 0.539885
Target:  5'- -cGUGGUCGUG-CCgACGaUGCCGGCa -3'
miRNA:   3'- gcCACCAGUGCaGGgUGC-ACGGCUGg -5'
28169 3' -58.4 NC_005887.1 + 32731 0.66 0.529441
Target:  5'- aCGGcgGGguagCGCGgcgCUCGCGUGCgCG-CCg -3'
miRNA:   3'- -GCCa-CCa---GUGCa--GGGUGCACG-GCuGG- -5'
28169 3' -58.4 NC_005887.1 + 12159 0.66 0.52321
Target:  5'- gCGGccagCACGUCggugaccugaccgagCgACGUGCCGACCu -3'
miRNA:   3'- -GCCaccaGUGCAG---------------GgUGCACGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 41858 0.67 0.478461
Target:  5'- uGGuUGGUuggcaugaaCGCGaCCCACGUcgGCaCGACCu -3'
miRNA:   3'- gCC-ACCA---------GUGCaGGGUGCA--CG-GCUGG- -5'
28169 3' -58.4 NC_005887.1 + 15344 0.67 0.468552
Target:  5'- gCGGgaucgacucGGcCACGUUCCACGUGaCGcCCg -3'
miRNA:   3'- -GCCa--------CCaGUGCAGGGUGCACgGCuGG- -5'
28169 3' -58.4 NC_005887.1 + 4849 0.67 0.468552
Target:  5'- -cGUGaUCACGUCCCcCGUGCagcgcaCGAUCg -3'
miRNA:   3'- gcCACcAGUGCAGGGuGCACG------GCUGG- -5'
28169 3' -58.4 NC_005887.1 + 9463 0.67 0.430015
Target:  5'- aGGUGGUCACGgguacgguggCgACGaacgacccgGCCGACCc -3'
miRNA:   3'- gCCACCAGUGCag--------GgUGCa--------CGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 21313 0.68 0.420675
Target:  5'- aCGGg---CACG-CCCAcCGcGCCGACCg -3'
miRNA:   3'- -GCCaccaGUGCaGGGU-GCaCGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 32998 0.68 0.420675
Target:  5'- uCGGUGGUCAUGcgCgaCACGcUGCCGuCg -3'
miRNA:   3'- -GCCACCAGUGCa-Gg-GUGC-ACGGCuGg -5'
28169 3' -58.4 NC_005887.1 + 17620 0.68 0.393405
Target:  5'- ---cGGUCACGUaguUCCaguACGcGCCGACCg -3'
miRNA:   3'- gccaCCAGUGCA---GGG---UGCaCGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 9358 0.68 0.393405
Target:  5'- uCGGUGcccGUaaccugcgGCGUCgC-CGUGCCGACCg -3'
miRNA:   3'- -GCCAC---CAg-------UGCAGgGuGCACGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 1865 0.68 0.383698
Target:  5'- uCGGcGG-CACGUCCUucggguaGCG-GCCGACg -3'
miRNA:   3'- -GCCaCCaGUGCAGGG-------UGCaCGGCUGg -5'
28169 3' -58.4 NC_005887.1 + 36404 0.69 0.373291
Target:  5'- uGGUGGUCugGUucauuugcgcaccgCCUuccGCGcgGCCGGCUu -3'
miRNA:   3'- gCCACCAGugCA--------------GGG---UGCa-CGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 23641 0.69 0.367309
Target:  5'- -cGUaGUCGCGUUCgCAC-UGCCGGCCg -3'
miRNA:   3'- gcCAcCAGUGCAGG-GUGcACGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 14909 0.69 0.350585
Target:  5'- gCGGUGuG-CACG-CCCgcgaACGUGCCcGCCa -3'
miRNA:   3'- -GCCAC-CaGUGCaGGG----UGCACGGcUGG- -5'
28169 3' -58.4 NC_005887.1 + 10362 0.69 0.342428
Target:  5'- cCGGUa-UCACGUacaaCgGCGUGCCGACg -3'
miRNA:   3'- -GCCAccAGUGCAg---GgUGCACGGCUGg -5'
28169 3' -58.4 NC_005887.1 + 11989 0.7 0.326529
Target:  5'- aCGGcaGGUCGCG-CCCACGuUGCaGACa -3'
miRNA:   3'- -GCCa-CCAGUGCaGGGUGC-ACGgCUGg -5'
28169 3' -58.4 NC_005887.1 + 36157 0.71 0.282153
Target:  5'- cCGGUuuccucgucgcGG-CGCGUCaC-CGUGCCGACCg -3'
miRNA:   3'- -GCCA-----------CCaGUGCAGgGuGCACGGCUGG- -5'
28169 3' -58.4 NC_005887.1 + 4246 0.71 0.248937
Target:  5'- uCGGUcgcGGUCAUGUCgCCGC-UGUCGACg -3'
miRNA:   3'- -GCCA---CCAGUGCAG-GGUGcACGGCUGg -5'
28169 3' -58.4 NC_005887.1 + 12075 0.74 0.159139
Target:  5'- aGGUcggcacgucgcucGGUCAgGUCaCCgACGUGCUGGCCg -3'
miRNA:   3'- gCCA-------------CCAGUgCAG-GG-UGCACGGCUGG- -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.