miRNA display CGI


Results 1 - 20 of 44 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
20404 5' -56.9 NC_004687.1 + 6837 0.66 0.882927
Target:  5'- gCACCgaaggcgauggCCAgGGUGAgcgACCAGCCGG-GGc -3'
miRNA:   3'- -GUGGa----------GGU-CCACU---UGGUCGGCUaCCa -5'
20404 5' -56.9 NC_004687.1 + 123250 0.66 0.882927
Target:  5'- gACCUCCAGGUGGucggcagagACCGGa-GcgGGc -3'
miRNA:   3'- gUGGAGGUCCACU---------UGGUCggCuaCCa -5'
20404 5' -56.9 NC_004687.1 + 122003 0.66 0.882927
Target:  5'- aCACCUCCGGaUGAucgaggaguccgGCgAGCCGuucGUGGa -3'
miRNA:   3'- -GUGGAGGUCcACU------------UGgUCGGC---UACCa -5'
20404 5' -56.9 NC_004687.1 + 75870 0.66 0.882229
Target:  5'- gACCUacggcggUCGGGUGGuCCAGCUGcUGGg -3'
miRNA:   3'- gUGGA-------GGUCCACUuGGUCGGCuACCa -5'
20404 5' -56.9 NC_004687.1 + 155876 0.66 0.875846
Target:  5'- uCACCgagcgCCAGGUGA-CCAcGaCCGAgacGGUc -3'
miRNA:   3'- -GUGGa----GGUCCACUuGGU-C-GGCUa--CCA- -5'
20404 5' -56.9 NC_004687.1 + 29798 0.66 0.875846
Target:  5'- cCACCUCguagcuCGGGUcGAGCaCGGUggCGAUGGUg -3'
miRNA:   3'- -GUGGAG------GUCCA-CUUG-GUCG--GCUACCA- -5'
20404 5' -56.9 NC_004687.1 + 91338 0.66 0.875846
Target:  5'- gCACCUCaccGGUcGGGCCGG-UGGUGGUg -3'
miRNA:   3'- -GUGGAGgu-CCA-CUUGGUCgGCUACCA- -5'
20404 5' -56.9 NC_004687.1 + 93546 0.66 0.873679
Target:  5'- gUACCaUCCGGccucgguugacgccGUGAugCucuuGCCGGUGGUg -3'
miRNA:   3'- -GUGG-AGGUC--------------CACUugGu---CGGCUACCA- -5'
20404 5' -56.9 NC_004687.1 + 57726 0.66 0.868548
Target:  5'- -cCCUCCGGGcUGAAUgugGGCCaGGUGGg -3'
miRNA:   3'- guGGAGGUCC-ACUUGg--UCGG-CUACCa -5'
20404 5' -56.9 NC_004687.1 + 101487 0.66 0.868548
Target:  5'- gGCCUCCAGGgcggcGAuccucgccuCCAGCuuggCGAUGGc -3'
miRNA:   3'- gUGGAGGUCCa----CUu--------GGUCG----GCUACCa -5'
20404 5' -56.9 NC_004687.1 + 153944 0.66 0.868548
Target:  5'- gCAUCUCgacgAGGUGAGCCAGCuCGAa--- -3'
miRNA:   3'- -GUGGAGg---UCCACUUGGUCG-GCUacca -5'
20404 5' -56.9 NC_004687.1 + 150245 0.66 0.868548
Target:  5'- uCACUUCCcGGUGGugCuGCCGAUc-- -3'
miRNA:   3'- -GUGGAGGuCCACUugGuCGGCUAcca -5'
20404 5' -56.9 NC_004687.1 + 2606 0.66 0.861039
Target:  5'- aGCCUCCGGGgccGACCAGCgccagCGucuUGGa -3'
miRNA:   3'- gUGGAGGUCCac-UUGGUCG-----GCu--ACCa -5'
20404 5' -56.9 NC_004687.1 + 154435 0.66 0.853324
Target:  5'- aCGCgCUCCAGGgccuCCGGauuuuuCCGGUGGUg -3'
miRNA:   3'- -GUG-GAGGUCCacuuGGUC------GGCUACCA- -5'
20404 5' -56.9 NC_004687.1 + 38354 0.66 0.853324
Target:  5'- aCAUCUCCgAGGcccuGAUCAGCCGcGUGGUc -3'
miRNA:   3'- -GUGGAGG-UCCac--UUGGUCGGC-UACCA- -5'
20404 5' -56.9 NC_004687.1 + 117332 0.66 0.84541
Target:  5'- cCugUUCCAGGUGAACaccCCGgcGGg -3'
miRNA:   3'- -GugGAGGUCCACUUGgucGGCuaCCa -5'
20404 5' -56.9 NC_004687.1 + 80598 0.66 0.84541
Target:  5'- gGCCUU--GGUGAgaccGCCcaucaGGCCGGUGGUg -3'
miRNA:   3'- gUGGAGguCCACU----UGG-----UCGGCUACCA- -5'
20404 5' -56.9 NC_004687.1 + 102221 0.67 0.837302
Target:  5'- cCGCCgaCCAcGGUGGcgcucAUCGGCCaGAUGGUg -3'
miRNA:   3'- -GUGGa-GGU-CCACU-----UGGUCGG-CUACCA- -5'
20404 5' -56.9 NC_004687.1 + 82918 0.67 0.82901
Target:  5'- aCGCCUCCAGGgccGAAa-GGCCaAUGGc -3'
miRNA:   3'- -GUGGAGGUCCa--CUUggUCGGcUACCa -5'
20404 5' -56.9 NC_004687.1 + 125263 0.67 0.820538
Target:  5'- gGCCuagaUCgGGGUGAGCCAGCU--UGGc -3'
miRNA:   3'- gUGG----AGgUCCACUUGGUCGGcuACCa -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.