miRNA display CGI


Results 1 - 19 of 19 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
18387 5' -56.2 NC_004681.1 + 24841 0.66 0.761729
Target:  5'- gGCGuCGGCGGc-GCGGGCGGcGg----- -3'
miRNA:   3'- -CGU-GCCGCCcaUGCCCGCC-Caaaaua -5'
18387 5' -56.2 NC_004681.1 + 18212 0.66 0.761729
Target:  5'- cGCACcccCGGGUGuacCGGGCGGGc----- -3'
miRNA:   3'- -CGUGcc-GCCCAU---GCCCGCCCaaaaua -5'
18387 5' -56.2 NC_004681.1 + 1428 0.66 0.761729
Target:  5'- aCACGGCcauuGGcgccGCGGGCGGGg----- -3'
miRNA:   3'- cGUGCCGc---CCa---UGCCCGCCCaaaaua -5'
18387 5' -56.2 NC_004681.1 + 39939 0.66 0.751708
Target:  5'- gGCGCGcGCGGGcGCGGugcGCGcGGUg---- -3'
miRNA:   3'- -CGUGC-CGCCCaUGCC---CGC-CCAaaaua -5'
18387 5' -56.2 NC_004681.1 + 19671 0.66 0.751708
Target:  5'- -gACcGCGGGUGCGGGgaaCGGGa----- -3'
miRNA:   3'- cgUGcCGCCCAUGCCC---GCCCaaaaua -5'
18387 5' -56.2 NC_004681.1 + 30968 0.67 0.710579
Target:  5'- cGCGgGGCuccagcGGGUcgGCGGGCGGcGUg---- -3'
miRNA:   3'- -CGUgCCG------CCCA--UGCCCGCC-CAaaaua -5'
18387 5' -56.2 NC_004681.1 + 45802 0.67 0.678926
Target:  5'- aCGCGGCGcuGGUacucgGCGaGGCGGGgcUUGa -3'
miRNA:   3'- cGUGCCGC--CCA-----UGC-CCGCCCaaAAUa -5'
18387 5' -56.2 NC_004681.1 + 3552 0.67 0.678926
Target:  5'- cCACGGUGGGgACGGGCGu------- -3'
miRNA:   3'- cGUGCCGCCCaUGCCCGCccaaaaua -5'
18387 5' -56.2 NC_004681.1 + 23157 0.67 0.678926
Target:  5'- uGCGC-GCGauUGCGGGCGGGgacgUUGUg -3'
miRNA:   3'- -CGUGcCGCccAUGCCCGCCCaa--AAUA- -5'
18387 5' -56.2 NC_004681.1 + 50920 0.67 0.678926
Target:  5'- aGCugGGUGGcggUGGGCGGGg----- -3'
miRNA:   3'- -CGugCCGCCcauGCCCGCCCaaaaua -5'
18387 5' -56.2 NC_004681.1 + 43804 0.67 0.678926
Target:  5'- aGgGCGGCGGuGUACugcggcGGCGGGg--UGUg -3'
miRNA:   3'- -CgUGCCGCC-CAUGc-----CCGCCCaaaAUA- -5'
18387 5' -56.2 NC_004681.1 + 14553 0.67 0.66721
Target:  5'- gGCGCGcGCGGcGUucgccuccgccucGCGGGCGGcGUa---- -3'
miRNA:   3'- -CGUGC-CGCC-CA-------------UGCCCGCC-CAaaaua -5'
18387 5' -56.2 NC_004681.1 + 62174 0.68 0.604043
Target:  5'- --uCGGCGGGcACGGGCGGc------ -3'
miRNA:   3'- cguGCCGCCCaUGCCCGCCcaaaaua -5'
18387 5' -56.2 NC_004681.1 + 13214 0.69 0.593366
Target:  5'- --gUGGCGGGcaGCgGGGCGGGUgUUAa -3'
miRNA:   3'- cguGCCGCCCa-UG-CCCGCCCAaAAUa -5'
18387 5' -56.2 NC_004681.1 + 66656 0.69 0.593366
Target:  5'- gGCAuCGGgGGGUACccgagGGGCcGGGUggUGg -3'
miRNA:   3'- -CGU-GCCgCCCAUG-----CCCG-CCCAaaAUa -5'
18387 5' -56.2 NC_004681.1 + 3128 0.69 0.540602
Target:  5'- gGCGCcGCGGGUGCGGGCa-------- -3'
miRNA:   3'- -CGUGcCGCCCAUGCCCGcccaaaaua -5'
18387 5' -56.2 NC_004681.1 + 11044 0.69 0.540602
Target:  5'- -aGCGuGUGGGUGCGGgaguGCGGGUg---- -3'
miRNA:   3'- cgUGC-CGCCCAUGCC----CGCCCAaaaua -5'
18387 5' -56.2 NC_004681.1 + 47426 0.71 0.459949
Target:  5'- uGCACGGUGGGaguCGGGUGGa------ -3'
miRNA:   3'- -CGUGCCGCCCau-GCCCGCCcaaaaua -5'
18387 5' -56.2 NC_004681.1 + 13150 1.07 0.00171
Target:  5'- gGCACGGCGGGUACGGGCGGGUUUUAUc -3'
miRNA:   3'- -CGUGCCGCCCAUGCCCGCCCAAAAUA- -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.