miRNA display CGI


Results 1 - 20 of 29 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
10343 3' -57.8 NC_002687.1 + 210954 0.66 0.969263
Target:  5'- aCGCCGAUu-UCUACCgCAUUCGUgUCg -3'
miRNA:   3'- gGUGGCUGccAGAUGG-GUGAGCGgAG- -5'
10343 3' -57.8 NC_002687.1 + 305215 0.66 0.963373
Target:  5'- uCCACC-ACcuUCgcgACCCACuucuUCGCCUCg -3'
miRNA:   3'- -GGUGGcUGccAGa--UGGGUG----AGCGGAG- -5'
10343 3' -57.8 NC_002687.1 + 75526 0.66 0.960151
Target:  5'- -gGCuUGACGGaUCUACCCGacCUCGUCaUCg -3'
miRNA:   3'- ggUG-GCUGCC-AGAUGGGU--GAGCGG-AG- -5'
10343 3' -57.8 NC_002687.1 + 139408 0.66 0.956739
Target:  5'- cCCACUGugGGUaUACCuCGC-CGCaUUCg -3'
miRNA:   3'- -GGUGGCugCCAgAUGG-GUGaGCG-GAG- -5'
10343 3' -57.8 NC_002687.1 + 25201 0.66 0.956739
Target:  5'- -gACCGACGcGUUggACCacaaaACUCGCCg- -3'
miRNA:   3'- ggUGGCUGC-CAGa-UGGg----UGAGCGGag -5'
10343 3' -57.8 NC_002687.1 + 298654 0.66 0.953132
Target:  5'- aUCAUCGACacuacgcgccuGGUgUGCCCcggCGCCUCu -3'
miRNA:   3'- -GGUGGCUG-----------CCAgAUGGGugaGCGGAG- -5'
10343 3' -57.8 NC_002687.1 + 330857 0.66 0.952387
Target:  5'- aCGCUGACGccacagcagGCCCGCUCGCUg- -3'
miRNA:   3'- gGUGGCUGCcaga-----UGGGUGAGCGGag -5'
10343 3' -57.8 NC_002687.1 + 44757 0.67 0.948544
Target:  5'- -gACCGACGGcCUcaagcacACCCgacuugaccacgaGCUCGCCa- -3'
miRNA:   3'- ggUGGCUGCCaGA-------UGGG-------------UGAGCGGag -5'
10343 3' -57.8 NC_002687.1 + 35456 0.67 0.94112
Target:  5'- aUCACCGcauCGGcagaUGCCCGCcccUGCCUCa -3'
miRNA:   3'- -GGUGGCu--GCCag--AUGGGUGa--GCGGAG- -5'
10343 3' -57.8 NC_002687.1 + 80968 0.67 0.932097
Target:  5'- aCCACCGccAUGG-C-ACCCuuggACUCGCCUa -3'
miRNA:   3'- -GGUGGC--UGCCaGaUGGG----UGAGCGGAg -5'
10343 3' -57.8 NC_002687.1 + 87780 0.67 0.932097
Target:  5'- gCACCGGCaucugguagccGGgCUGCUgACUCGgCCUCu -3'
miRNA:   3'- gGUGGCUG-----------CCaGAUGGgUGAGC-GGAG- -5'
10343 3' -57.8 NC_002687.1 + 110429 0.67 0.927277
Target:  5'- aCACaCGACa-UCUACgCACUCGCCg- -3'
miRNA:   3'- gGUG-GCUGccAGAUGgGUGAGCGGag -5'
10343 3' -57.8 NC_002687.1 + 299371 0.68 0.91541
Target:  5'- aCCAUCGACccggagacgGGUCUGCUCACUCaaccccgaaguguaGCC-Cg -3'
miRNA:   3'- -GGUGGCUG---------CCAGAUGGGUGAG--------------CGGaG- -5'
10343 3' -57.8 NC_002687.1 + 41608 0.68 0.905942
Target:  5'- uCCuCCGACGaaGcCUACCCGCUccCGCCa- -3'
miRNA:   3'- -GGuGGCUGC--CaGAUGGGUGA--GCGGag -5'
10343 3' -57.8 NC_002687.1 + 148141 0.69 0.881381
Target:  5'- uCCACCGACGGUaaaga-ACUCGUCUg -3'
miRNA:   3'- -GGUGGCUGCCAgaugggUGAGCGGAg -5'
10343 3' -57.8 NC_002687.1 + 313593 0.69 0.867943
Target:  5'- -aGCCGACGGUCgaagUCCACUCuCCg- -3'
miRNA:   3'- ggUGGCUGCCAGau--GGGUGAGcGGag -5'
10343 3' -57.8 NC_002687.1 + 147702 0.69 0.861655
Target:  5'- cCCACCGGgGGUCgacgcaguacguauaGCCUugUCGUCgUCg -3'
miRNA:   3'- -GGUGGCUgCCAGa--------------UGGGugAGCGG-AG- -5'
10343 3' -57.8 NC_002687.1 + 85728 0.69 0.860947
Target:  5'- cCCGCUGGCcccgCUGgcCCCGCUgGCCUCg -3'
miRNA:   3'- -GGUGGCUGcca-GAU--GGGUGAgCGGAG- -5'
10343 3' -57.8 NC_002687.1 + 19968 0.7 0.846428
Target:  5'- aCACUG-CGGUgCUACCCAUUUGCUc- -3'
miRNA:   3'- gGUGGCuGCCA-GAUGGGUGAGCGGag -5'
10343 3' -57.8 NC_002687.1 + 195803 0.7 0.846428
Target:  5'- aCACUG-CGGUgCUACCCAUUUGCUc- -3'
miRNA:   3'- gGUGGCuGCCA-GAUGGGUGAGCGGag -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.