miRNA display CGI


Results 1 - 20 of 25 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
16146 3' -54.3 NC_004065.1 + 209076 0.66 0.982875
Target:  5'- cGUCUucacagUGGUCGAgGACCAGUGCGcccgccuccaaaGCGGa -3'
miRNA:   3'- -CAGA------GCUAGCU-CUGGUCAUGC------------CGCUa -5'
16146 3' -54.3 NC_004065.1 + 105693 0.66 0.982875
Target:  5'- -aCUCGGaccCGGGACUGGcggcgACGGCGAa -3'
miRNA:   3'- caGAGCUa--GCUCUGGUCa----UGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 32342 0.66 0.978721
Target:  5'- --gUCGAgUCGAGcggcggUCGGUACGGCGAg -3'
miRNA:   3'- cagAGCU-AGCUCu-----GGUCAUGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 35536 0.66 0.973602
Target:  5'- aUCUCGGUCuucuucaagagagGAGGCguGaGCGGCGGc -3'
miRNA:   3'- cAGAGCUAG-------------CUCUGguCaUGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 36444 0.67 0.971155
Target:  5'- gGUCU-GG-CGAGACCucUGCGGCGAa -3'
miRNA:   3'- -CAGAgCUaGCUCUGGucAUGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 227490 0.67 0.971155
Target:  5'- cGUCgacCGAUCG-GACCAGccgacgguugACGGUGAg -3'
miRNA:   3'- -CAGa--GCUAGCuCUGGUCa---------UGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 31008 0.67 0.96825
Target:  5'- gGUggCGAgauggaGAGGCCGGUgACGGCGAa -3'
miRNA:   3'- -CAgaGCUag----CUCUGGUCA-UGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 141041 0.67 0.967948
Target:  5'- aGUUUCGAUCGGGACCucuacaacuaccgGGgcUGGCa-- -3'
miRNA:   3'- -CAGAGCUAGCUCUGG-------------UCauGCCGcua -5'
16146 3' -54.3 NC_004065.1 + 201008 0.67 0.961828
Target:  5'- gGUCU-GAcUCGAGGCCGcGUGCGcGCGGc -3'
miRNA:   3'- -CAGAgCU-AGCUCUGGU-CAUGC-CGCUa -5'
16146 3' -54.3 NC_004065.1 + 63257 0.67 0.961485
Target:  5'- uUCUCGA-CGAuGAUCAGguucaagaggagcUACGGCGAg -3'
miRNA:   3'- cAGAGCUaGCU-CUGGUC-------------AUGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 18911 0.67 0.9583
Target:  5'- cUCUCGGUucucauaaacCGAGGCgAG-ACGGCGGg -3'
miRNA:   3'- cAGAGCUA----------GCUCUGgUCaUGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 7319 0.68 0.9464
Target:  5'- ---aCGAUCGAG-CCGGUgguaccggacGCGGCGGa -3'
miRNA:   3'- cagaGCUAGCUCuGGUCA----------UGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 84033 0.69 0.927346
Target:  5'- gGUCUCGAUCGAGACgGcGUccGCcaucuGGUGAUa -3'
miRNA:   3'- -CAGAGCUAGCUCUGgU-CA--UG-----CCGCUA- -5'
16146 3' -54.3 NC_004065.1 + 67486 0.69 0.927346
Target:  5'- aGUCUCGAgagcccgucCGAGACCuGgccCGGCGGc -3'
miRNA:   3'- -CAGAGCUa--------GCUCUGGuCau-GCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 27397 0.69 0.91062
Target:  5'- -aCUCaGGUCGAGGCCuGUcCGGCGu- -3'
miRNA:   3'- caGAG-CUAGCUCUGGuCAuGCCGCua -5'
16146 3' -54.3 NC_004065.1 + 131242 0.69 0.904584
Target:  5'- gGUCUCGGUCGucuCCGugGCGGCGGa -3'
miRNA:   3'- -CAGAGCUAGCucuGGUcaUGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 99800 0.69 0.898319
Target:  5'- aGUCUCGAUCGAGGCaCAGa--GuGUGAUc -3'
miRNA:   3'- -CAGAGCUAGCUCUG-GUCaugC-CGCUA- -5'
16146 3' -54.3 NC_004065.1 + 143701 0.7 0.885118
Target:  5'- cGUCUgaCGA-CGAGACCAGgucggcgcCGGCGAg -3'
miRNA:   3'- -CAGA--GCUaGCUCUGGUCau------GCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 165853 0.7 0.873929
Target:  5'- uUCUCGGUauacuugcguaacucCGAGACCAGguCGGCGGc -3'
miRNA:   3'- cAGAGCUA---------------GCUCUGGUCauGCCGCUa -5'
16146 3' -54.3 NC_004065.1 + 159683 0.7 0.871047
Target:  5'- cUCUCGAUCucGuucGCCAGUuCGGCGAa -3'
miRNA:   3'- cAGAGCUAGcuC---UGGUCAuGCCGCUa -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.