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
22267 3' -62.3 NC_005045.1 + 38210 0.66 0.289825
Target:  5'- -cGCgagUGCUGAGC-GGCUgGGCcuGCu -3'
miRNA:   3'- gaCGa--GCGACUCGaCCGGgCCGucCG- -5'
22267 3' -62.3 NC_005045.1 + 34317 0.66 0.28911
Target:  5'- cCUGCgcgggccaaUGCUGAGC-GGCCCGacauacuGCcGGCg -3'
miRNA:   3'- -GACGa--------GCGACUCGaCCGGGC-------CGuCCG- -5'
22267 3' -62.3 NC_005045.1 + 29046 0.66 0.268981
Target:  5'- uCUGCgCGgUGAGCgugcccguaUGG-CCGGCgAGGCu -3'
miRNA:   3'- -GACGaGCgACUCG---------ACCgGGCCG-UCCG- -5'
22267 3' -62.3 NC_005045.1 + 16355 0.66 0.262307
Target:  5'- -aGCaugaaGCgaAGCUGGCCaagcgcCGGCAGGCa -3'
miRNA:   3'- gaCGag---CGacUCGACCGG------GCCGUCCG- -5'
22267 3' -62.3 NC_005045.1 + 39571 0.67 0.249364
Target:  5'- cCUGCcggCGCUGAugGCUGGa--GGCuGGGCa -3'
miRNA:   3'- -GACGa--GCGACU--CGACCgggCCG-UCCG- -5'
22267 3' -62.3 NC_005045.1 + 41843 0.67 0.249364
Target:  5'- gCUGCggGCUGAGCUGGUCgcacaccucgaCGaGCugauGGCu -3'
miRNA:   3'- -GACGagCGACUCGACCGG-----------GC-CGu---CCG- -5'
22267 3' -62.3 NC_005045.1 + 23451 0.67 0.243092
Target:  5'- gUGCUUGCggaacaacGGGUUGaCCugCGGCAGGCa -3'
miRNA:   3'- gACGAGCGa-------CUCGACcGG--GCCGUCCG- -5'
22267 3' -62.3 NC_005045.1 + 6195 0.67 0.233331
Target:  5'- -gGCUCGUgagcGGGCgaaGGCggcggcuaaggacacCUGGCAGGCa -3'
miRNA:   3'- gaCGAGCGa---CUCGa--CCG---------------GGCCGUCCG- -5'
22267 3' -62.3 NC_005045.1 + 28972 0.67 0.225062
Target:  5'- -cGCgcacuccgCGCcGAGCacucUGGCCCGGCuGGa -3'
miRNA:   3'- gaCGa-------GCGaCUCG----ACCGGGCCGuCCg -5'
22267 3' -62.3 NC_005045.1 + 20361 0.68 0.213683
Target:  5'- gUGCUCGUaGAGCUGGCgaaacagcuCgGGguGGa -3'
miRNA:   3'- gACGAGCGaCUCGACCG---------GgCCguCCg -5'
22267 3' -62.3 NC_005045.1 + 24046 0.68 0.213683
Target:  5'- uUGCUCaGCggacaGAGCU-GCCagGGCAGGUg -3'
miRNA:   3'- gACGAG-CGa----CUCGAcCGGg-CCGUCCG- -5'
22267 3' -62.3 NC_005045.1 + 41612 0.68 0.20818
Target:  5'- uUGUaggCGgUGAGCgGGUCCGGUGGGg -3'
miRNA:   3'- gACGa--GCgACUCGaCCGGGCCGUCCg -5'
22267 3' -62.3 NC_005045.1 + 32043 0.69 0.177684
Target:  5'- -cGCg-GCUGGuauGCUGGaCCCGGCAgcccuGGCa -3'
miRNA:   3'- gaCGagCGACU---CGACC-GGGCCGU-----CCG- -5'
22267 3' -62.3 NC_005045.1 + 16661 0.69 0.173004
Target:  5'- -gGC-CGCUGAGgUGGUCCGGaaguuccccGGCg -3'
miRNA:   3'- gaCGaGCGACUCgACCGGGCCgu-------CCG- -5'
22267 3' -62.3 NC_005045.1 + 21760 0.69 0.172542
Target:  5'- cCUGCuagugaacaaccUCGCUGccaAGCUGGCgCGGUcgcuguuccccacGGGCa -3'
miRNA:   3'- -GACG------------AGCGAC---UCGACCGgGCCG-------------UCCG- -5'
22267 3' -62.3 NC_005045.1 + 33845 0.69 0.168435
Target:  5'- -gGC-CGCcccUGGGCUGGCCCGccgagccaucaGCgAGGCa -3'
miRNA:   3'- gaCGaGCG---ACUCGACCGGGC-----------CG-UCCG- -5'
22267 3' -62.3 NC_005045.1 + 5305 0.69 0.168435
Target:  5'- uCUGCcCGCU--GCUGGCacaCGGCcaGGGCa -3'
miRNA:   3'- -GACGaGCGAcuCGACCGg--GCCG--UCCG- -5'
22267 3' -62.3 NC_005045.1 + 41989 0.7 0.147176
Target:  5'- gUGUggGCUGGGUUGGCUgGuGUGGGCg -3'
miRNA:   3'- gACGagCGACUCGACCGGgC-CGUCCG- -5'
22267 3' -62.3 NC_005045.1 + 34250 0.72 0.111842
Target:  5'- -gGC-CGCUcAGCauUGGCCCGcGCAGGUa -3'
miRNA:   3'- gaCGaGCGAcUCG--ACCGGGC-CGUCCG- -5'
22267 3' -62.3 NC_005045.1 + 33653 0.79 0.029296
Target:  5'- cCUGCUCGUUGAGCUGGUCgCGGaCAGcCa -3'
miRNA:   3'- -GACGAGCGACUCGACCGG-GCC-GUCcG- -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.