miRNA display CGI


Results 1 - 20 of 23 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
28007 5' -53.5 NC_005887.1 + 37702 1.13 0.000594
Target:  5'- cUGCGCGUCGCUGAGAUCCUUGAUCGCg -3'
miRNA:   3'- -ACGCGCAGCGACUCUAGGAACUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 30906 0.79 0.146061
Target:  5'- cUGCGCGUUGC---GAUCCaUGAUCGCg -3'
miRNA:   3'- -ACGCGCAGCGacuCUAGGaACUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 6013 0.73 0.360089
Target:  5'- gGUGCGUCGCUGAGugaagggguuuugaAUCCgggUGGU-GCu -3'
miRNA:   3'- aCGCGCAGCGACUC--------------UAGGa--ACUAgCG- -5'
28007 5' -53.5 NC_005887.1 + 29896 0.71 0.468769
Target:  5'- cGCGCGUCgaaccguacagGCUcGGGUCCaucgcGAUCGCg -3'
miRNA:   3'- aCGCGCAG-----------CGAcUCUAGGaa---CUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 27652 0.69 0.543872
Target:  5'- uUGUGCG-CGCUGAGcugCCgcgcgcgcggcUUGAUCGUc -3'
miRNA:   3'- -ACGCGCaGCGACUCua-GG-----------AACUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 38151 0.69 0.554949
Target:  5'- cUGCGCG-CGCUGcAGca-CUUcGGUCGCg -3'
miRNA:   3'- -ACGCGCaGCGAC-UCuagGAA-CUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 30624 0.68 0.599828
Target:  5'- aGCGCGUC-CgGcAGAUCCg-GAUCGUu -3'
miRNA:   3'- aCGCGCAGcGaC-UCUAGGaaCUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 4633 0.68 0.599827
Target:  5'- cUGCGCGaauacgCGCUGAa--CCU-GAUCGCc -3'
miRNA:   3'- -ACGCGCa-----GCGACUcuaGGAaCUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 27028 0.67 0.690298
Target:  5'- cGCGUGUCGC-GAGGUaaUUGuucaCGCg -3'
miRNA:   3'- aCGCGCAGCGaCUCUAggAACua--GCG- -5'
28007 5' -53.5 NC_005887.1 + 9414 0.67 0.656497
Target:  5'- cGCGCgGUCGUUGAGAcguauggCCUgaaUGGUCu- -3'
miRNA:   3'- aCGCG-CAGCGACUCUa------GGA---ACUAGcg -5'
28007 5' -53.5 NC_005887.1 + 12577 0.67 0.656497
Target:  5'- cUGCGCGaCGCgGcGAUCCUcgcGAUCaGCu -3'
miRNA:   3'- -ACGCGCaGCGaCuCUAGGAa--CUAG-CG- -5'
28007 5' -53.5 NC_005887.1 + 6297 0.67 0.690298
Target:  5'- gUGCGCGagCGCgucGAGG-CCUUGcgccUCGCc -3'
miRNA:   3'- -ACGCGCa-GCGa--CUCUaGGAACu---AGCG- -5'
28007 5' -53.5 NC_005887.1 + 26463 0.67 0.698119
Target:  5'- cUGCGCGUCgagcgcaccgagcuGCUGGuGcgCCUgcUGcgCGCg -3'
miRNA:   3'- -ACGCGCAG--------------CGACU-CuaGGA--ACuaGCG- -5'
28007 5' -53.5 NC_005887.1 + 12627 0.67 0.701462
Target:  5'- cGCGCGgCGCgu-GAUCCUgcGA-CGCg -3'
miRNA:   3'- aCGCGCaGCGacuCUAGGAa-CUaGCG- -5'
28007 5' -53.5 NC_005887.1 + 39783 0.66 0.745276
Target:  5'- gGCGC-UCGCgccGAUCgUUGcgCGCg -3'
miRNA:   3'- aCGCGcAGCGacuCUAGgAACuaGCG- -5'
28007 5' -53.5 NC_005887.1 + 36934 0.66 0.742047
Target:  5'- cGCGCcgGUCGCUGcGGcgCCgcccgccgguucaccGGUCGCg -3'
miRNA:   3'- aCGCG--CAGCGAC-UCuaGGaa-------------CUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 5502 0.66 0.745276
Target:  5'- cGCGCGUCGC---GAUCCag---CGCa -3'
miRNA:   3'- aCGCGCAGCGacuCUAGGaacuaGCG- -5'
28007 5' -53.5 NC_005887.1 + 15565 0.66 0.755957
Target:  5'- cGCGCGaccgCGCUc-GAUUCgcUGAUCGCc -3'
miRNA:   3'- aCGCGCa---GCGAcuCUAGGa-ACUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 37490 0.66 0.755957
Target:  5'- aGgGCGgCGgUcAGuUCCUUGAUCGCc -3'
miRNA:   3'- aCgCGCaGCgAcUCuAGGAACUAGCG- -5'
28007 5' -53.5 NC_005887.1 + 22989 0.66 0.723563
Target:  5'- gGCGCGUugcCGCUGAucGAcgCC--GGUCGCu -3'
miRNA:   3'- aCGCGCA---GCGACU--CUa-GGaaCUAGCG- -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.