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
27481 5' -60.6 NC_005869.1 + 16841 0.66 0.353776
Target:  5'- -cGCCCGUgGCGgUgGC-CAagaGCUCCCUg -3'
miRNA:   3'- gcCGGGCA-CGCgAgCGaGU---UGAGGGG- -5'
27481 5' -60.6 NC_005869.1 + 1780 0.66 0.345459
Target:  5'- gGGCCCcUGCGCUCcauGUUCu-CUCUgCg -3'
miRNA:   3'- gCCGGGcACGCGAG---CGAGuuGAGGgG- -5'
27481 5' -60.6 NC_005869.1 + 17787 0.66 0.337283
Target:  5'- -uGCCCGUGCGgaUGCggagaccgaGACUCCgCg -3'
miRNA:   3'- gcCGGGCACGCgaGCGag-------UUGAGGgG- -5'
27481 5' -60.6 NC_005869.1 + 21096 0.66 0.329249
Target:  5'- -cGCCC-UGgGCUCGCccuUCGAC-CCCUa -3'
miRNA:   3'- gcCGGGcACgCGAGCG---AGUUGaGGGG- -5'
27481 5' -60.6 NC_005869.1 + 9782 0.66 0.321357
Target:  5'- gCGGCCgGcGCGCUgcaggcggaugCGgUCGGCcaugCCCCa -3'
miRNA:   3'- -GCCGGgCaCGCGA-----------GCgAGUUGa---GGGG- -5'
27481 5' -60.6 NC_005869.1 + 9523 0.66 0.313608
Target:  5'- gGGUCCGggGCGCagGUUCcgUUCUCCu -3'
miRNA:   3'- gCCGGGCa-CGCGagCGAGuuGAGGGG- -5'
27481 5' -60.6 NC_005869.1 + 27892 0.67 0.298535
Target:  5'- aGGCCaCGgucUGCGCU---UCAGcCUCCCCa -3'
miRNA:   3'- gCCGG-GC---ACGCGAgcgAGUU-GAGGGG- -5'
27481 5' -60.6 NC_005869.1 + 17496 0.67 0.270088
Target:  5'- gCGcGCCgCGUGCGcCUCGC---GC-CCCCa -3'
miRNA:   3'- -GC-CGG-GCACGC-GAGCGaguUGaGGGG- -5'
27481 5' -60.6 NC_005869.1 + 16190 0.67 0.263326
Target:  5'- gGGCCCGccC-CUCGC-CGAC-CCCCg -3'
miRNA:   3'- gCCGGGCacGcGAGCGaGUUGaGGGG- -5'
27481 5' -60.6 NC_005869.1 + 23897 0.68 0.256703
Target:  5'- aGG-CCGcGCGCUUGCggc-CUCCCCc -3'
miRNA:   3'- gCCgGGCaCGCGAGCGaguuGAGGGG- -5'
27481 5' -60.6 NC_005869.1 + 9292 0.68 0.250216
Target:  5'- aGGuCCUGguugGCGCagGC-CGGCUCCUCg -3'
miRNA:   3'- gCC-GGGCa---CGCGagCGaGUUGAGGGG- -5'
27481 5' -60.6 NC_005869.1 + 24914 0.68 0.237649
Target:  5'- -uGCUgGUGCGCcgCGCgagcCcACUCCCCg -3'
miRNA:   3'- gcCGGgCACGCGa-GCGa---GuUGAGGGG- -5'
27481 5' -60.6 NC_005869.1 + 31979 0.68 0.231565
Target:  5'- gCGGCCCG-GCuGUUgCGCaCGGC-CCCCa -3'
miRNA:   3'- -GCCGGGCaCG-CGA-GCGaGUUGaGGGG- -5'
27481 5' -60.6 NC_005869.1 + 10711 0.68 0.231565
Target:  5'- gGGCCUG-GCGCggcugucgggCGCggCGGC-CCCCg -3'
miRNA:   3'- gCCGGGCaCGCGa---------GCGa-GUUGaGGGG- -5'
27481 5' -60.6 NC_005869.1 + 16754 0.68 0.225614
Target:  5'- cCGcGCCCGagGUGCU-GCcCAGcCUCCCCg -3'
miRNA:   3'- -GC-CGGGCa-CGCGAgCGaGUU-GAGGGG- -5'
27481 5' -60.6 NC_005869.1 + 23527 0.68 0.225614
Target:  5'- uGGCagCUGaucuUGCGCUCGUUCAGCcaggcuugggCCCCg -3'
miRNA:   3'- gCCG--GGC----ACGCGAGCGAGUUGa---------GGGG- -5'
27481 5' -60.6 NC_005869.1 + 32005 0.69 0.2141
Target:  5'- cCGGCCCuucgagccUGCGCcCGCUCG-CUUCCa -3'
miRNA:   3'- -GCCGGGc-------ACGCGaGCGAGUuGAGGGg -5'
27481 5' -60.6 NC_005869.1 + 20649 0.69 0.197778
Target:  5'- aCGGCC--UGCGCUacCGCUCccAGCUCCUg -3'
miRNA:   3'- -GCCGGgcACGCGA--GCGAG--UUGAGGGg -5'
27481 5' -60.6 NC_005869.1 + 18069 0.69 0.192584
Target:  5'- gGGCgCGUGCccagcaccaGCaccucgucgcugUCGCUCAAC-CCCCg -3'
miRNA:   3'- gCCGgGCACG---------CG------------AGCGAGUUGaGGGG- -5'
27481 5' -60.6 NC_005869.1 + 25481 0.7 0.177712
Target:  5'- aCGcGCCCGUGCccCUgGCcCAGCUgCCCg -3'
miRNA:   3'- -GC-CGGGCACGc-GAgCGaGUUGAgGGG- -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.