miRNA display CGI


Results 1 - 20 of 30 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
16355 3' -55.4 NC_004084.1 + 6752 1.11 0.00078
Target:  5'- uAGGGGAACUCCUCGAUCAUCGCCUCCu -3'
miRNA:   3'- -UCCCCUUGAGGAGCUAGUAGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 15414 0.84 0.063913
Target:  5'- uGGGGAACUCCUCGAUCG-CGUCgaguUCCu -3'
miRNA:   3'- uCCCCUUGAGGAGCUAGUaGCGG----AGG- -5'
16355 3' -55.4 NC_004084.1 + 5727 0.75 0.258223
Target:  5'- cGGGccGAGgUCCUCGAUCGggaugaUCGCCUCg -3'
miRNA:   3'- uCCC--CUUgAGGAGCUAGU------AGCGGAGg -5'
16355 3' -55.4 NC_004084.1 + 34862 0.75 0.27851
Target:  5'- cGGGGAGCgcgauaucgUCCgaaUCGAUCAcgGCCUCCa -3'
miRNA:   3'- uCCCCUUG---------AGG---AGCUAGUagCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 22494 0.72 0.37571
Target:  5'- cGGGGAcauGCucgugaaccgcgucaUCCUCGAcgacgAUCGCCUCCg -3'
miRNA:   3'- uCCCCU---UG---------------AGGAGCUag---UAGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 53521 0.72 0.380956
Target:  5'- cGaGGAACUCCUCGua---CGCCUCCu -3'
miRNA:   3'- uCcCCUUGAGGAGCuaguaGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 46434 0.72 0.389808
Target:  5'- uGGGGAACUCgUCGA--GUUGaCUCCa -3'
miRNA:   3'- uCCCCUUGAGgAGCUagUAGCgGAGG- -5'
16355 3' -55.4 NC_004084.1 + 35291 0.72 0.398794
Target:  5'- uGGGGAGgUCCUCGAUCGuuUCGacggucaccUUUCCg -3'
miRNA:   3'- uCCCCUUgAGGAGCUAGU--AGC---------GGAGG- -5'
16355 3' -55.4 NC_004084.1 + 53440 0.72 0.406077
Target:  5'- gAGuGGGuccccgccgauCUCCUCGuggGUCGUCGUCUCCc -3'
miRNA:   3'- -UC-CCCuu---------GAGGAGC---UAGUAGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 30133 0.71 0.455381
Target:  5'- cGGGGAACUgCUCGAUC-UCcaUUCCg -3'
miRNA:   3'- uCCCCUUGAgGAGCUAGuAGcgGAGG- -5'
16355 3' -55.4 NC_004084.1 + 13924 0.7 0.505677
Target:  5'- cGcGGAACUCCUCG-UCAUCguuuaggcgaGCCUCa -3'
miRNA:   3'- uCcCCUUGAGGAGCuAGUAG----------CGGAGg -5'
16355 3' -55.4 NC_004084.1 + 14271 0.69 0.558207
Target:  5'- cAGGuGGAGgUCCUCG-UCGUCGCgagcggCUUCg -3'
miRNA:   3'- -UCC-CCUUgAGGAGCuAGUAGCG------GAGG- -5'
16355 3' -55.4 NC_004084.1 + 27978 0.69 0.558207
Target:  5'- cAGcGGGAcguCgUCCUCGc-CAUCGCUUCCg -3'
miRNA:   3'- -UC-CCCUu--G-AGGAGCuaGUAGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 51510 0.69 0.568914
Target:  5'- gAGuGGGAGCUCgUCGAgacgGUCGCgaUCCc -3'
miRNA:   3'- -UC-CCCUUGAGgAGCUag--UAGCGg-AGG- -5'
16355 3' -55.4 NC_004084.1 + 50547 0.69 0.568914
Target:  5'- gAGGagcGGAGuCUCCUCGAUCAUguCCgUCCa -3'
miRNA:   3'- -UCC---CCUU-GAGGAGCUAGUAgcGG-AGG- -5'
16355 3' -55.4 NC_004084.1 + 8705 0.68 0.590472
Target:  5'- cGGGGAGuucugcaagaacCUCCUCGGcgUCAcccucguggaugUCGCCggUCCa -3'
miRNA:   3'- uCCCCUU------------GAGGAGCU--AGU------------AGCGG--AGG- -5'
16355 3' -55.4 NC_004084.1 + 54773 0.68 0.601306
Target:  5'- uGGGuGAGgaUCUCGAUCGugagccagccgaUCGCCUCg -3'
miRNA:   3'- uCCC-CUUgaGGAGCUAGU------------AGCGGAGg -5'
16355 3' -55.4 NC_004084.1 + 39012 0.68 0.623043
Target:  5'- cGGGGAucacgACUCCgaaacCAUCGCCUgCCc -3'
miRNA:   3'- uCCCCU-----UGAGGagcuaGUAGCGGA-GG- -5'
16355 3' -55.4 NC_004084.1 + 16663 0.68 0.64481
Target:  5'- -cGGGAGgUCCUCGucgccggCGUCGUC-CCg -3'
miRNA:   3'- ucCCCUUgAGGAGCua-----GUAGCGGaGG- -5'
16355 3' -55.4 NC_004084.1 + 2391 0.68 0.64481
Target:  5'- -cGGGAcCUCCUCGAgc-UCGaUCUCCu -3'
miRNA:   3'- ucCCCUuGAGGAGCUaguAGC-GGAGG- -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.