miRNA display CGI


Results 1 - 20 of 65 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
23506 3' -62.6 NC_005259.1 + 68515 0.68 0.319942
Target:  5'- -gCCGACUuCuGCCgagCGagcUGCCCGCCAc -3'
miRNA:   3'- cgGGCUGGuGuCGGa--GC---ACGGGCGGU- -5'
23506 3' -62.6 NC_005259.1 + 68240 0.74 0.127528
Target:  5'- gGCCUgcucaaggauGACCGCAGCCUUGcGCUCGUCGu -3'
miRNA:   3'- -CGGG----------CUGGUGUCGGAGCaCGGGCGGU- -5'
23506 3' -62.6 NC_005259.1 + 67120 0.67 0.374578
Target:  5'- uGCCCG-CUGCGGUCgugCGUGagcaCCGCUg -3'
miRNA:   3'- -CGGGCuGGUGUCGGa--GCACg---GGCGGu -5'
23506 3' -62.6 NC_005259.1 + 66849 0.66 0.417294
Target:  5'- cGCCCGcacggGCCACcgaucGGCCUUGUucGCaCCGCg- -3'
miRNA:   3'- -CGGGC-----UGGUG-----UCGGAGCA--CG-GGCGgu -5'
23506 3' -62.6 NC_005259.1 + 66755 0.66 0.391306
Target:  5'- uGCCCGGCCu--GCCagUCGaccGCCUGCUg -3'
miRNA:   3'- -CGGGCUGGuguCGG--AGCa--CGGGCGGu -5'
23506 3' -62.6 NC_005259.1 + 64752 0.74 0.126529
Target:  5'- cGCCC-ACCGCGccucgcgacggugcGCCUCGgcgGCCCGCUg -3'
miRNA:   3'- -CGGGcUGGUGU--------------CGGAGCa--CGGGCGGu -5'
23506 3' -62.6 NC_005259.1 + 61951 0.68 0.30547
Target:  5'- uGCCgGggccACCGCAGCCUCacGCgCCGCUg -3'
miRNA:   3'- -CGGgC----UGGUGUCGGAGcaCG-GGCGGu -5'
23506 3' -62.6 NC_005259.1 + 61858 0.68 0.30547
Target:  5'- cCUCGGCCACcGCCUCGcgUGCCgCGUg- -3'
miRNA:   3'- cGGGCUGGUGuCGGAGC--ACGG-GCGgu -5'
23506 3' -62.6 NC_005259.1 + 60106 0.71 0.193952
Target:  5'- aGCUCGACCagcgacucgauaucgGCGGCCUCGUccugcgcggccuuGgCCGCCGc -3'
miRNA:   3'- -CGGGCUGG---------------UGUCGGAGCA-------------CgGGCGGU- -5'
23506 3' -62.6 NC_005259.1 + 56908 0.73 0.137927
Target:  5'- uGgCCG-CCGCAGCaggCGUGCCCGCg- -3'
miRNA:   3'- -CgGGCuGGUGUCGga-GCACGGGCGgu -5'
23506 3' -62.6 NC_005259.1 + 56242 0.7 0.218102
Target:  5'- -gCCGACCACguugggaucggcGGCCUUGaGCgCCGCCGc -3'
miRNA:   3'- cgGGCUGGUG------------UCGGAGCaCG-GGCGGU- -5'
23506 3' -62.6 NC_005259.1 + 55760 0.7 0.242996
Target:  5'- -aCCGugCGCAGCCgcguacgcgucgagcUCG-GCCCGCUu -3'
miRNA:   3'- cgGGCugGUGUCGG---------------AGCaCGGGCGGu -5'
23506 3' -62.6 NC_005259.1 + 55693 0.67 0.334922
Target:  5'- cCCCGuCgGCAGCCUCGUugauGgCCGCgAg -3'
miRNA:   3'- cGGGCuGgUGUCGGAGCA----CgGGCGgU- -5'
23506 3' -62.6 NC_005259.1 + 54841 0.72 0.156999
Target:  5'- aGCCCGACCGUAGCaguagGCCCGCUg -3'
miRNA:   3'- -CGGGCUGGUGUCGgagcaCGGGCGGu -5'
23506 3' -62.6 NC_005259.1 + 53862 0.66 0.417294
Target:  5'- -gCCGACCACAGCUcaaGcGCUaCGCCGa -3'
miRNA:   3'- cgGGCUGGUGUCGGag-CaCGG-GCGGU- -5'
23506 3' -62.6 NC_005259.1 + 53453 0.67 0.374578
Target:  5'- uGCC--ACCACGGCggcuggCUCGUcguccgGCCCGCCGu -3'
miRNA:   3'- -CGGgcUGGUGUCG------GAGCA------CGGGCGGU- -5'
23506 3' -62.6 NC_005259.1 + 49675 0.74 0.124226
Target:  5'- uGCUCGGCCugguaguCGGCCUCGcGCUCGCUg -3'
miRNA:   3'- -CGGGCUGGu------GUCGGAGCaCGGGCGGu -5'
23506 3' -62.6 NC_005259.1 + 47318 0.69 0.246568
Target:  5'- gGCCUGACCgGCGGCCUUGgucaGCcCCGUg- -3'
miRNA:   3'- -CGGGCUGG-UGUCGGAGCa---CG-GGCGgu -5'
23506 3' -62.6 NC_005259.1 + 46905 0.75 0.106027
Target:  5'- cGCCCG-CCgaGCAGUCcgCGUGCgCCGCCGa -3'
miRNA:   3'- -CGGGCuGG--UGUCGGa-GCACG-GGCGGU- -5'
23506 3' -62.6 NC_005259.1 + 46767 0.67 0.342602
Target:  5'- aCCUGcGCCgACAGCCgc--GCCCGCCGg -3'
miRNA:   3'- cGGGC-UGG-UGUCGGagcaCGGGCGGU- -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.