miRNA display CGI


Results 1 - 20 of 90 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
23793 3' -56.9 NC_005261.1 + 64876 0.9 0.042722
Target:  5'- aGAUCAGCGGCGgCGGGAgcGCCGGGUCc -3'
miRNA:   3'- gCUAGUCGCCGUgGUCCU--UGGUCCAG- -5'
23793 3' -56.9 NC_005261.1 + 127641 0.76 0.298456
Target:  5'- aCGG-CGGCGGCGCCGGGGggcGCgCGGGUUc -3'
miRNA:   3'- -GCUaGUCGCCGUGGUCCU---UG-GUCCAG- -5'
23793 3' -56.9 NC_005261.1 + 94058 0.76 0.325006
Target:  5'- ---cCAGCGGCGCCGGGAgcagaaccgccgccGCCGGGa- -3'
miRNA:   3'- gcuaGUCGCCGUGGUCCU--------------UGGUCCag -5'
23793 3' -56.9 NC_005261.1 + 97457 0.75 0.350134
Target:  5'- --uUCGGCGGCGCCGGGAucGCCAaaaccGUCg -3'
miRNA:   3'- gcuAGUCGCCGUGGUCCU--UGGUc----CAG- -5'
23793 3' -56.9 NC_005261.1 + 58074 0.75 0.350134
Target:  5'- gCGGaCGGCGGCGCCAGGGcCCGcGUCc -3'
miRNA:   3'- -GCUaGUCGCCGUGGUCCUuGGUcCAG- -5'
23793 3' -56.9 NC_005261.1 + 79913 0.75 0.382402
Target:  5'- ---gCAGCaGGCACCAGGAcgugGCCAGG-Cg -3'
miRNA:   3'- gcuaGUCG-CCGUGGUCCU----UGGUCCaG- -5'
23793 3' -56.9 NC_005261.1 + 2458 0.74 0.390772
Target:  5'- gGGUCgaaGGCGaGCGCCGGGcGCCAGGg- -3'
miRNA:   3'- gCUAG---UCGC-CGUGGUCCuUGGUCCag -5'
23793 3' -56.9 NC_005261.1 + 127856 0.74 0.390772
Target:  5'- gCGGUC-GCGGCGCCAGGGcacgaGCgGGaGUCg -3'
miRNA:   3'- -GCUAGuCGCCGUGGUCCU-----UGgUC-CAG- -5'
23793 3' -56.9 NC_005261.1 + 20570 0.74 0.425423
Target:  5'- uGcgCAGCGGCGCCGGcGGCgCGGGUg -3'
miRNA:   3'- gCuaGUCGCCGUGGUCcUUG-GUCCAg -5'
23793 3' -56.9 NC_005261.1 + 104527 0.73 0.47214
Target:  5'- gCGA-CGGCGGCcgccACCAGGcgcagcuuggcguccGCCAGGUCg -3'
miRNA:   3'- -GCUaGUCGCCG----UGGUCCu--------------UGGUCCAG- -5'
23793 3' -56.9 NC_005261.1 + 15264 0.72 0.490199
Target:  5'- gCGAUCgccccGGCGGCGCCGccGGGGCgCGcGGUCg -3'
miRNA:   3'- -GCUAG-----UCGCCGUGGU--CCUUG-GU-CCAG- -5'
23793 3' -56.9 NC_005261.1 + 33516 0.72 0.499833
Target:  5'- gCGG-CGGCGGCACCgcuggccccGGGAgcACCAGGg- -3'
miRNA:   3'- -GCUaGUCGCCGUGG---------UCCU--UGGUCCag -5'
23793 3' -56.9 NC_005261.1 + 111090 0.72 0.509549
Target:  5'- uGGUguGgGGgGCCGGGGACUGGGUg -3'
miRNA:   3'- gCUAguCgCCgUGGUCCUUGGUCCAg -5'
23793 3' -56.9 NC_005261.1 + 109068 0.72 0.528222
Target:  5'- ---cCAGCGGCGCCucGGcgaucaugccguuGGCCAGGUCc -3'
miRNA:   3'- gcuaGUCGCCGUGGu-CC-------------UUGGUCCAG- -5'
23793 3' -56.9 NC_005261.1 + 88182 0.72 0.529212
Target:  5'- gCGAcgcCGGCGGCGCCGGcGAGgCGGGcCg -3'
miRNA:   3'- -GCUa--GUCGCCGUGGUC-CUUgGUCCaG- -5'
23793 3' -56.9 NC_005261.1 + 95736 0.72 0.53616
Target:  5'- gCGcUCAGCGGCGCCgccgccgccgccggGGGcGCCGGGa- -3'
miRNA:   3'- -GCuAGUCGCCGUGG--------------UCCuUGGUCCag -5'
23793 3' -56.9 NC_005261.1 + 70339 0.71 0.549147
Target:  5'- aCGcGUCgAGCGG-GCCGGGGACCGGGa- -3'
miRNA:   3'- -GC-UAG-UCGCCgUGGUCCUUGGUCCag -5'
23793 3' -56.9 NC_005261.1 + 65326 0.71 0.55618
Target:  5'- cCGGgcaCAGCGGCACCGGGAuguugccguugaugACgCGGGg- -3'
miRNA:   3'- -GCUa--GUCGCCGUGGUCCU--------------UG-GUCCag -5'
23793 3' -56.9 NC_005261.1 + 33743 0.71 0.559203
Target:  5'- --cUCGcGCGGCGCCGGG-GCCGGGcCc -3'
miRNA:   3'- gcuAGU-CGCCGUGGUCCuUGGUCCaG- -5'
23793 3' -56.9 NC_005261.1 + 102275 0.71 0.579461
Target:  5'- cCGGUCGGCcugccGCGCCAGcGGCCgcGGGUCg -3'
miRNA:   3'- -GCUAGUCGc----CGUGGUCcUUGG--UCCAG- -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.