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
30421 5' -56.6 NC_006548.1 + 29172 0.66 0.574055
Target:  5'- aGUUCGcugaCGAgacCGGCCUgCUggGCGGCCu -3'
miRNA:   3'- -CAAGCc---GCU---GCCGGAgGGaaUGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 3066 0.66 0.574055
Target:  5'- aUUCGGCGAUaucgaaGCCUucaucaCCCUguCGGCCg -3'
miRNA:   3'- cAAGCCGCUGc-----CGGA------GGGAauGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 28540 0.66 0.552244
Target:  5'- -cUCGGCGccggccaggucGCGGCgCUaCCC--GCGACUa -3'
miRNA:   3'- caAGCCGC-----------UGCCG-GA-GGGaaUGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 20846 0.66 0.54143
Target:  5'- --gCGGCagcaGGCGGCCggCCUUGaccaGGCCu -3'
miRNA:   3'- caaGCCG----CUGCCGGagGGAAUg---CUGG- -5'
30421 5' -56.6 NC_006548.1 + 22743 0.66 0.54143
Target:  5'- --cCGGCGAugaagUGGCCagUCCCgaaGCGGCg -3'
miRNA:   3'- caaGCCGCU-----GCCGG--AGGGaa-UGCUGg -5'
30421 5' -56.6 NC_006548.1 + 33506 0.66 0.530688
Target:  5'- uGUUCGGCGGgcaGGUCUUCC--ACcGCCg -3'
miRNA:   3'- -CAAGCCGCUg--CCGGAGGGaaUGcUGG- -5'
30421 5' -56.6 NC_006548.1 + 31430 0.67 0.478284
Target:  5'- --cUGuGCGACGGUCggUCCCUU-CGACg -3'
miRNA:   3'- caaGC-CGCUGCCGG--AGGGAAuGCUGg -5'
30421 5' -56.6 NC_006548.1 + 17185 0.67 0.475218
Target:  5'- ---aGGCGAacauCGGCCUgcaaaucaucguugCCCagACGGCCg -3'
miRNA:   3'- caagCCGCU----GCCGGA--------------GGGaaUGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 20877 0.68 0.468104
Target:  5'- ---gGGCGACGGCCaggucacaaagCCg--GCGGCCg -3'
miRNA:   3'- caagCCGCUGCCGGa----------GGgaaUGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 29821 0.68 0.448088
Target:  5'- ---gGGCGGCGGCCgcaaCCCagccgggcAUGACCc -3'
miRNA:   3'- caagCCGCUGCCGGa---GGGaa------UGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 5638 0.68 0.448088
Target:  5'- cUUCGGgGugGGUCUUCUUgagccaGGCCa -3'
miRNA:   3'- cAAGCCgCugCCGGAGGGAaug---CUGG- -5'
30421 5' -56.6 NC_006548.1 + 16269 0.68 0.442176
Target:  5'- --gUGGCGACGGCCgcgacaucacucgaCCCUUuaucucUGGCCu -3'
miRNA:   3'- caaGCCGCUGCCGGa-------------GGGAAu-----GCUGG- -5'
30421 5' -56.6 NC_006548.1 + 20011 0.68 0.418978
Target:  5'- --gCGGCGAucuccugcaggaUGGCCUCggugaacuccaCCggGCGACCa -3'
miRNA:   3'- caaGCCGCU------------GCCGGAG-----------GGaaUGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 2900 0.68 0.418978
Target:  5'- -gUCGGCcAUGGCCcgaaugaCCUUguaGCGACCg -3'
miRNA:   3'- caAGCCGcUGCCGGag-----GGAA---UGCUGG- -5'
30421 5' -56.6 NC_006548.1 + 28963 0.69 0.400222
Target:  5'- -cUCGGCGcCGGCCgCCUcgACGguuugGCCg -3'
miRNA:   3'- caAGCCGCuGCCGGaGGGaaUGC-----UGG- -5'
30421 5' -56.6 NC_006548.1 + 33271 0.69 0.382009
Target:  5'- --cCGGUGcACGGCUUCCgUUGgcaGACCu -3'
miRNA:   3'- caaGCCGC-UGCCGGAGGgAAUg--CUGG- -5'
30421 5' -56.6 NC_006548.1 + 24317 0.7 0.322749
Target:  5'- --gCGGCGGUGGCCgcgUCCUggguuuCGACCg -3'
miRNA:   3'- caaGCCGCUGCCGGa--GGGAau----GCUGG- -5'
30421 5' -56.6 NC_006548.1 + 23760 0.7 0.322749
Target:  5'- aGUUCGGCGGC-GCCgCCC--ACGugCu -3'
miRNA:   3'- -CAAGCCGCUGcCGGaGGGaaUGCugG- -5'
30421 5' -56.6 NC_006548.1 + 27047 0.71 0.313306
Target:  5'- --aUGGUGGCGGCCUCgCUgcaacaacaauCGGCCc -3'
miRNA:   3'- caaGCCGCUGCCGGAGgGAau---------GCUGG- -5'
30421 5' -56.6 NC_006548.1 + 15526 0.71 0.277635
Target:  5'- --cCGGcCGACgacgacguGGCCUUCCUggagUACGACCu -3'
miRNA:   3'- caaGCC-GCUG--------CCGGAGGGA----AUGCUGG- -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.