miRNA display CGI


Results 1 - 13 of 13 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
28088 3' -50.6 NC_005887.1 + 33620 0.66 0.882339
Target:  5'- gCGGCGUgGUCUucgaacuucccGUaGCGcGCGCUGCg- -3'
miRNA:   3'- -GCCGCAgUAGA-----------UA-CGUaCGUGAUGac -5'
28088 3' -50.6 NC_005887.1 + 1094 0.66 0.866609
Target:  5'- aCGGCGcCAUUgccgacgccgagcagGUGCGUGUGCUugUc -3'
miRNA:   3'- -GCCGCaGUAGa--------------UACGUACGUGAugAc -5'
28088 3' -50.6 NC_005887.1 + 41272 0.66 0.848069
Target:  5'- uGGCGcCGUCgaccUGCGcacgggcGCGCUGCUGc -3'
miRNA:   3'- gCCGCaGUAGau--ACGUa------CGUGAUGAC- -5'
28088 3' -50.6 NC_005887.1 + 36818 0.68 0.768007
Target:  5'- gGGCGcagaAUC-GUGCGUGC-CUGCUGc -3'
miRNA:   3'- gCCGCag--UAGaUACGUACGuGAUGAC- -5'
28088 3' -50.6 NC_005887.1 + 37748 0.68 0.768007
Target:  5'- gCGGCGagCAUCUGUuGCAucUGCGCggcCUGc -3'
miRNA:   3'- -GCCGCa-GUAGAUA-CGU--ACGUGau-GAC- -5'
28088 3' -50.6 NC_005887.1 + 25298 0.68 0.735018
Target:  5'- aCGGCGUCcgCccaaGCGUGcCGCUGCg- -3'
miRNA:   3'- -GCCGCAGuaGaua-CGUAC-GUGAUGac -5'
28088 3' -50.6 NC_005887.1 + 18393 0.68 0.735018
Target:  5'- gGGCcgagGUCGUCgGUGCGUGCGCagACg- -3'
miRNA:   3'- gCCG----CAGUAGaUACGUACGUGa-UGac -5'
28088 3' -50.6 NC_005887.1 + 41951 0.69 0.712419
Target:  5'- cCGGCGUgcUCgcgugGUGCGUGCGCgGCg- -3'
miRNA:   3'- -GCCGCAguAGa----UACGUACGUGaUGac -5'
28088 3' -50.6 NC_005887.1 + 21274 0.69 0.677885
Target:  5'- gCGGCGg---CggcGUAUGCGCUGCUGg -3'
miRNA:   3'- -GCCGCaguaGauaCGUACGUGAUGAC- -5'
28088 3' -50.6 NC_005887.1 + 28045 0.7 0.619512
Target:  5'- uCGGCGUgAUCga-GCAgGCGCUGCg- -3'
miRNA:   3'- -GCCGCAgUAGauaCGUaCGUGAUGac -5'
28088 3' -50.6 NC_005887.1 + 6910 0.72 0.516055
Target:  5'- uCGGCGUCAUCUAcGCGU-CGCUcgacCUGa -3'
miRNA:   3'- -GCCGCAGUAGAUaCGUAcGUGAu---GAC- -5'
28088 3' -50.6 NC_005887.1 + 4664 0.76 0.310776
Target:  5'- cCGGCGUCG-CU-UGCAUGCggggcgGCUGCUGa -3'
miRNA:   3'- -GCCGCAGUaGAuACGUACG------UGAUGAC- -5'
28088 3' -50.6 NC_005887.1 + 5766 1.08 0.002152
Target:  5'- gCGGCGUCAUCUAUGCAUGCACUACUGc -3'
miRNA:   3'- -GCCGCAGUAGAUACGUACGUGAUGAC- -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.