miRNA display CGI


Results 1 - 20 of 22 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
23459 3' -49.9 NC_005259.1 + 10940 0.66 0.970853
Target:  5'- aCUCGGUGUCGacCUCGucggUGUCGGUc -3'
miRNA:   3'- cGAGCUAUAGCa-GAGCua--GUAGCCGu -5'
23459 3' -49.9 NC_005259.1 + 8692 0.66 0.967607
Target:  5'- cCUCGAUGUCGcUgUCGAggUCGUC-GCGg -3'
miRNA:   3'- cGAGCUAUAGC-AgAGCU--AGUAGcCGU- -5'
23459 3' -49.9 NC_005259.1 + 61509 0.66 0.964112
Target:  5'- cGCUCGGUGUgcCGg-UCGAccUCGUCGGgAa -3'
miRNA:   3'- -CGAGCUAUA--GCagAGCU--AGUAGCCgU- -5'
23459 3' -49.9 NC_005259.1 + 64537 0.67 0.961515
Target:  5'- aGCUCGuccucagccgCGUcCUCGAUCucgauuuccucgguGUCGGCGa -3'
miRNA:   3'- -CGAGCuaua------GCA-GAGCUAG--------------UAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 22111 0.67 0.956351
Target:  5'- uUUCGAgGUCGacccCUCGAUCccgcgcagccacGUCGGCAu -3'
miRNA:   3'- cGAGCUaUAGCa---GAGCUAG------------UAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 62986 0.67 0.952071
Target:  5'- cCUCGcgcGUCGaCUCGAUggCAUUGGCAg -3'
miRNA:   3'- cGAGCua-UAGCaGAGCUA--GUAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 55014 0.67 0.947519
Target:  5'- cGCUUGGcgGUCGUCUCGG-CAcgGGCu -3'
miRNA:   3'- -CGAGCUa-UAGCAGAGCUaGUagCCGu -5'
23459 3' -49.9 NC_005259.1 + 18696 0.67 0.947519
Target:  5'- uGCUUGAgcacggCGgucugacCUCGAUCAUCGGg- -3'
miRNA:   3'- -CGAGCUaua---GCa------GAGCUAGUAGCCgu -5'
23459 3' -49.9 NC_005259.1 + 66465 0.68 0.931634
Target:  5'- aCUCGGUgacgcugguggcgGUgGUCUCGAUCAUgGGa- -3'
miRNA:   3'- cGAGCUA-------------UAgCAGAGCUAGUAgCCgu -5'
23459 3' -49.9 NC_005259.1 + 52421 0.68 0.926513
Target:  5'- cGCUCGAcucgggCGguuucuccgagcUCUCGAUguUCGGCGg -3'
miRNA:   3'- -CGAGCUaua---GC------------AGAGCUAguAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 61893 0.69 0.907786
Target:  5'- cCUCGAUAUCagggguuagGUCgccggUCG-UCGUCGGCAg -3'
miRNA:   3'- cGAGCUAUAG---------CAG-----AGCuAGUAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 23634 0.69 0.893901
Target:  5'- gGCUCGGUGUgGUUUCGGcccgcCGaCGGCGa -3'
miRNA:   3'- -CGAGCUAUAgCAGAGCUa----GUaGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 56388 0.7 0.862913
Target:  5'- cGCgUCGGcugAUCGUCUCGAUgGUgccCGGCc -3'
miRNA:   3'- -CG-AGCUa--UAGCAGAGCUAgUA---GCCGu -5'
23459 3' -49.9 NC_005259.1 + 8367 0.7 0.845909
Target:  5'- cGCUCGGcggCGgcCUCGG-CAUCGGCGa -3'
miRNA:   3'- -CGAGCUauaGCa-GAGCUaGUAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 42746 0.7 0.837057
Target:  5'- uGCUUGAgcaggCGguUCUCGAUCugcUCGGCGg -3'
miRNA:   3'- -CGAGCUaua--GC--AGAGCUAGu--AGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 60106 0.71 0.827983
Target:  5'- aGCUCGAccagCGaCUCGA-UAUCGGCGg -3'
miRNA:   3'- -CGAGCUaua-GCaGAGCUaGUAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 41074 0.71 0.822437
Target:  5'- gGCUCGAUGUCacgcagccggucguaGUCggCGGUCggCGGUAu -3'
miRNA:   3'- -CGAGCUAUAG---------------CAGa-GCUAGuaGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 58907 0.71 0.818698
Target:  5'- cCUCGGgcUCGUCggCGGUCuugucGUCGGCGg -3'
miRNA:   3'- cGAGCUauAGCAGa-GCUAG-----UAGCCGU- -5'
23459 3' -49.9 NC_005259.1 + 15837 0.71 0.789677
Target:  5'- aGCUCGAUGUaCGgCUCGggCAUCGcCAa -3'
miRNA:   3'- -CGAGCUAUA-GCaGAGCuaGUAGCcGU- -5'
23459 3' -49.9 NC_005259.1 + 64200 0.72 0.759141
Target:  5'- cCUCGAUGUCGacCUCGccgGUCGGCAg -3'
miRNA:   3'- cGAGCUAUAGCa-GAGCuagUAGCCGU- -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.