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
23042 3' -57.7 NC_005178.1 + 31435 0.66 0.45102
Target:  5'- uGgCCUGAUauccagcugcucCAGGAACCgcuggCGGCCGGcUCGc -3'
miRNA:   3'- -CgGGACUA------------GUCCUUGG-----GUCGGCC-AGU- -5'
23042 3' -57.7 NC_005178.1 + 17725 0.67 0.421632
Target:  5'- aCCCUGGagAcGAccgACCgGGCCGGUCGg -3'
miRNA:   3'- cGGGACUagUcCU---UGGgUCGGCCAGU- -5'
23042 3' -57.7 NC_005178.1 + 34923 0.67 0.412096
Target:  5'- cGCCCgaggcguccGGUCGggcGGAAUCCAGcCCGGUg- -3'
miRNA:   3'- -CGGGa--------CUAGU---CCUUGGGUC-GGCCAgu -5'
23042 3' -57.7 NC_005178.1 + 3162 0.67 0.387937
Target:  5'- gGCCCUuGGUagaucgucaugaaggCAGGcGCCCAGUCGGg-- -3'
miRNA:   3'- -CGGGA-CUA---------------GUCCuUGGGUCGGCCagu -5'
23042 3' -57.7 NC_005178.1 + 23525 0.67 0.387026
Target:  5'- uUCCUGAUCAGGGcgucacuccgcugGCCCGcagcccgcaggcuucGCCaGUCAg -3'
miRNA:   3'- cGGGACUAGUCCU-------------UGGGU---------------CGGcCAGU- -5'
23042 3' -57.7 NC_005178.1 + 2894 0.68 0.375319
Target:  5'- aCCCUGAUgCuGGAcauggcgcGCCuCGGCCaGGUCGa -3'
miRNA:   3'- cGGGACUA-GuCCU--------UGG-GUCGG-CCAGU- -5'
23042 3' -57.7 NC_005178.1 + 17719 0.68 0.375319
Target:  5'- cGCCCgucucGA-CGGucACCUGGCCGGUCu -3'
miRNA:   3'- -CGGGa----CUaGUCcuUGGGUCGGCCAGu -5'
23042 3' -57.7 NC_005178.1 + 31086 0.68 0.33257
Target:  5'- uGCCCUGG--AGGAacgcACCUGGaCGGUCAg -3'
miRNA:   3'- -CGGGACUagUCCU----UGGGUCgGCCAGU- -5'
23042 3' -57.7 NC_005178.1 + 24191 0.69 0.308687
Target:  5'- cGCCC--GUCAcGGAGCCCGccGCCuuGGUCAc -3'
miRNA:   3'- -CGGGacUAGU-CCUUGGGU--CGG--CCAGU- -5'
23042 3' -57.7 NC_005178.1 + 15634 0.71 0.244965
Target:  5'- gGCCUcGAUCAGGAugUgAGCCagcuuggcuggGGUCAg -3'
miRNA:   3'- -CGGGaCUAGUCCUugGgUCGG-----------CCAGU- -5'
23042 3' -57.7 NC_005178.1 + 25465 0.72 0.20328
Target:  5'- cGCCUUGAUCcGGGccGCCU-GCUGGUCGg -3'
miRNA:   3'- -CGGGACUAGuCCU--UGGGuCGGCCAGU- -5'
23042 3' -57.7 NC_005178.1 + 16596 0.72 0.20328
Target:  5'- cCCCUGGUCaagcuGGGcgUCCAgguGCCGGUCAa -3'
miRNA:   3'- cGGGACUAG-----UCCuuGGGU---CGGCCAGU- -5'
23042 3' -57.7 NC_005178.1 + 23576 1.11 0.000255
Target:  5'- cGCCCUGAUCAGGAACCCAGCCGGUCAg -3'
miRNA:   3'- -CGGGACUAGUCCUUGGGUCGGCCAGU- -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.