miRNA display CGI


Results 1 - 12 of 12 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
28463 3' -58.1 NC_005946.1 + 33753 0.66 0.748415
Target:  5'- uUGACGAgauGGCCcacgggGCCCU-GCC-GGUGGUg -3'
miRNA:   3'- -ACUGCU---CCGG------UGGGAgUGGuCCAUCA- -5'
28463 3' -58.1 NC_005946.1 + 95508 0.66 0.738557
Target:  5'- gGACcucGCCACCCUCucccuCCAGGcagAGUg -3'
miRNA:   3'- aCUGcucCGGUGGGAGu----GGUCCa--UCA- -5'
28463 3' -58.1 NC_005946.1 + 8399 0.66 0.728604
Target:  5'- aGACGGcagcuuGGugaaCCACCC-CACgGGGUAGUg -3'
miRNA:   3'- aCUGCU------CC----GGUGGGaGUGgUCCAUCA- -5'
28463 3' -58.1 NC_005946.1 + 69587 0.67 0.677742
Target:  5'- aGuCGAGGuCCGCCCcgaccgUCcUCAGGUAGg -3'
miRNA:   3'- aCuGCUCC-GGUGGG------AGuGGUCCAUCa -5'
28463 3' -58.1 NC_005946.1 + 90376 0.67 0.657061
Target:  5'- aGAUGAGgGCCGCCacaaUCACCAGcaUAGc -3'
miRNA:   3'- aCUGCUC-CGGUGGg---AGUGGUCc-AUCa -5'
28463 3' -58.1 NC_005946.1 + 87216 0.68 0.625907
Target:  5'- gUGACGAGaGCCucuCCCgcuUCGGGUAGc -3'
miRNA:   3'- -ACUGCUC-CGGu--GGGaguGGUCCAUCa -5'
28463 3' -58.1 NC_005946.1 + 1872 0.68 0.625907
Target:  5'- aGACuguaugucgGAGGCCACCUUaccCGCCAGcUGGUg -3'
miRNA:   3'- aCUG---------CUCCGGUGGGA---GUGGUCcAUCA- -5'
28463 3' -58.1 NC_005946.1 + 3944 0.68 0.615521
Target:  5'- uUGACGAGGgUGCCCUuuucCAUCAGGg--- -3'
miRNA:   3'- -ACUGCUCCgGUGGGA----GUGGUCCauca -5'
28463 3' -58.1 NC_005946.1 + 92553 0.68 0.594796
Target:  5'- gGACGGGGCCuacauauCCCUgCugCugggguccaGGGUGGUg -3'
miRNA:   3'- aCUGCUCCGGu------GGGA-GugG---------UCCAUCA- -5'
28463 3' -58.1 NC_005946.1 + 93572 0.69 0.549676
Target:  5'- gGACGAGGaCACCCUagaguuccucgcgGCCAGG-AGUg -3'
miRNA:   3'- aCUGCUCCgGUGGGAg------------UGGUCCaUCA- -5'
28463 3' -58.1 NC_005946.1 + 101568 0.71 0.419182
Target:  5'- uUGGa-GGGCCACCC-CGCguGGUAGUu -3'
miRNA:   3'- -ACUgcUCCGGUGGGaGUGguCCAUCA- -5'
28463 3' -58.1 NC_005946.1 + 69720 0.72 0.401588
Target:  5'- cGACa--GCCACagCCUCACCGGGUAGa -3'
miRNA:   3'- aCUGcucCGGUG--GGAGUGGUCCAUCa -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.