miRNA display CGI


Results 1 - 20 of 26 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
23682 3' -56.4 NC_005261.1 + 107066 0.67 0.801322
Target:  5'- -gCAUcUGCUGCCCGGGCaCCggCGCGAa -3'
miRNA:   3'- uaGUAcAUGACGGGUUCG-GGg-GUGCU- -5'
23682 3' -56.4 NC_005261.1 + 107323 0.66 0.860643
Target:  5'- -gCGUGcaGCUcGCCCAgcacGGCCUCCGCGu -3'
miRNA:   3'- uaGUACa-UGA-CGGGU----UCGGGGGUGCu -5'
23682 3' -56.4 NC_005261.1 + 60269 0.66 0.852753
Target:  5'- -cCGUGaagagGC-GCCCGGgguccGCCCCCGCGGc -3'
miRNA:   3'- uaGUACa----UGaCGGGUU-----CGGGGGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 38664 0.66 0.852753
Target:  5'- -gCggGUGCggGCCCGGGCCCgCCAg-- -3'
miRNA:   3'- uaGuaCAUGa-CGGGUUCGGG-GGUgcu -5'
23682 3' -56.4 NC_005261.1 + 104048 0.66 0.852753
Target:  5'- ----aGUACUGCCgCAGcGCCUcggCCGCGAg -3'
miRNA:   3'- uaguaCAUGACGG-GUU-CGGG---GGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 50533 0.66 0.835518
Target:  5'- cGUCGUc--UUGCCCGAGCCCaucggcgcgcggaCCACGGu -3'
miRNA:   3'- -UAGUAcauGACGGGUUCGGG-------------GGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 107367 0.66 0.827868
Target:  5'- cGUCGUGgGC-GCCgGGGCgCCCGCGu -3'
miRNA:   3'- -UAGUACaUGaCGGgUUCGgGGGUGCu -5'
23682 3' -56.4 NC_005261.1 + 13187 0.66 0.827868
Target:  5'- ---cUGUAgU-CCCAGGCCUCCACGu -3'
miRNA:   3'- uaguACAUgAcGGGUUCGGGGGUGCu -5'
23682 3' -56.4 NC_005261.1 + 134862 0.67 0.810341
Target:  5'- -aCAag-GC-GCCCGcGCCCCCGCGGg -3'
miRNA:   3'- uaGUacaUGaCGGGUuCGGGGGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 78051 0.67 0.810341
Target:  5'- --gGUGgucGCggGCCC-GGCCCCCGCGc -3'
miRNA:   3'- uagUACa--UGa-CGGGuUCGGGGGUGCu -5'
23682 3' -56.4 NC_005261.1 + 122066 0.67 0.801322
Target:  5'- gAUCAUGUACgggucgcgcacGCCCGcgcgcAGCCagcaggcguagCCCACGAa -3'
miRNA:   3'- -UAGUACAUGa----------CGGGU-----UCGG-----------GGGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 21117 1.07 0.002667
Target:  5'- cAUCAUGUACUGCCCAAGCCCCCACGAg -3'
miRNA:   3'- -UAGUACAUGACGGGUUCGGGGGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 134331 0.67 0.792143
Target:  5'- gGUCucgcUGCUGUaccgCAAGCCCCCGCGc -3'
miRNA:   3'- -UAGuac-AUGACGg---GUUCGGGGGUGCu -5'
23682 3' -56.4 NC_005261.1 + 121369 0.67 0.792143
Target:  5'- uUCGcGUACUGCa--GGCgCCCCGCGGc -3'
miRNA:   3'- uAGUaCAUGACGgguUCG-GGGGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 27263 0.67 0.782815
Target:  5'- --gGUGUGCgggcaGCCCGgccGGCCCCCggaccgcccucGCGAg -3'
miRNA:   3'- uagUACAUGa----CGGGU---UCGGGGG-----------UGCU- -5'
23682 3' -56.4 NC_005261.1 + 12720 0.68 0.744195
Target:  5'- cUCggGcGCgcggGCCCGccGGCCCCCugGGc -3'
miRNA:   3'- uAGuaCaUGa---CGGGU--UCGGGGGugCU- -5'
23682 3' -56.4 NC_005261.1 + 129018 0.68 0.724235
Target:  5'- -aCGUGcgGCUGCCCGuAGCCUaCGCGGc -3'
miRNA:   3'- uaGUACa-UGACGGGU-UCGGGgGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 120517 0.69 0.703946
Target:  5'- ------cGCUGCCCGAGUUCuCCGCGAc -3'
miRNA:   3'- uaguacaUGACGGGUUCGGG-GGUGCU- -5'
23682 3' -56.4 NC_005261.1 + 130695 0.69 0.683406
Target:  5'- ----cGUGCUGCUCGAGCaCCUCGcCGAg -3'
miRNA:   3'- uaguaCAUGACGGGUUCG-GGGGU-GCU- -5'
23682 3' -56.4 NC_005261.1 + 115101 0.74 0.404665
Target:  5'- -gCGUGUcggccucggcggcGCUGCCCAcGGCgCCCACGAu -3'
miRNA:   3'- uaGUACA-------------UGACGGGU-UCGgGGGUGCU- -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.