miRNA display CGI


Results 1 - 20 of 26 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
32003 3' -53.9 NC_006949.1 + 28439 0.66 0.733437
Target:  5'- uACCGACGCUGGCggaaCGGcgUAG-AGCu -3'
miRNA:   3'- -UGGUUGUGACCGaug-GUCa-GUCgUCG- -5'
32003 3' -53.9 NC_006949.1 + 33436 0.66 0.722468
Target:  5'- --aGAUGCUGGCauggcCCAGccCGGCAGCg -3'
miRNA:   3'- uggUUGUGACCGau---GGUCa-GUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 24544 0.66 0.704722
Target:  5'- uACC-GCGCUGGCUAUCcauuuaacuggcaauGGgUAGCAGUu -3'
miRNA:   3'- -UGGuUGUGACCGAUGG---------------UCaGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 14481 0.66 0.677754
Target:  5'- cGCCAGCGgcGGCUACgcgagcggCAGauaagcguugcUCGGCAGCg -3'
miRNA:   3'- -UGGUUGUgaCCGAUG--------GUC-----------AGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 18943 0.67 0.670964
Target:  5'- gAUUGGCAUUGGUU-CCGGUCgcggauaacggaaacGGCAGCc -3'
miRNA:   3'- -UGGUUGUGACCGAuGGUCAG---------------UCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 38569 0.67 0.666429
Target:  5'- aACCAGCcgUGGUUauaACCAGcgacCAGUAGCg -3'
miRNA:   3'- -UGGUUGugACCGA---UGGUCa---GUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 5147 0.68 0.586822
Target:  5'- gGCCAACGCccuGCU-CCGGagUAGCGGCu -3'
miRNA:   3'- -UGGUUGUGac-CGAuGGUCa-GUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 9217 0.68 0.575532
Target:  5'- aACCGaauGCAUcaucucgauGCaGCCAGUCGGCGGCa -3'
miRNA:   3'- -UGGU---UGUGac-------CGaUGGUCAGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 29017 0.68 0.564291
Target:  5'- uACCAGCcaguGC-GGUgaugACCucGUCGGCAGCa -3'
miRNA:   3'- -UGGUUG----UGaCCGa---UGGu-CAGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 14621 0.68 0.564291
Target:  5'- aAUC-GCACUGGCcGCUAGcauGGCAGCa -3'
miRNA:   3'- -UGGuUGUGACCGaUGGUCag-UCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 24035 0.69 0.518907
Target:  5'- aGCCAuaGCACcacaGGCUGCUGGUUuuaugguGGCAGUa -3'
miRNA:   3'- -UGGU--UGUGa---CCGAUGGUCAG-------UCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 14215 0.7 0.486632
Target:  5'- gGCC-GCAgUuGCUGCaagaaauCAGUCAGCAGCa -3'
miRNA:   3'- -UGGuUGUgAcCGAUG-------GUCAGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 8484 0.7 0.46669
Target:  5'- cGCCGugGugucaccuCUGGCgaugUACCAGUCucgcuGCGGCa -3'
miRNA:   3'- -UGGUugU--------GACCG----AUGGUCAGu----CGUCG- -5'
32003 3' -53.9 NC_006949.1 + 14745 0.73 0.334653
Target:  5'- uGCCAAUGgUGGCUGCCAacUCGGUAuGCg -3'
miRNA:   3'- -UGGUUGUgACCGAUGGUc-AGUCGU-CG- -5'
32003 3' -53.9 NC_006949.1 + 14229 0.76 0.20243
Target:  5'- cACCAACAUaacGGCUACCcauaacAG-CAGCAGCg -3'
miRNA:   3'- -UGGUUGUGa--CCGAUGG------UCaGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 34944 0.87 0.039126
Target:  5'- aACCAACACUGGCgACCAG-UAGCGGCn -3'
miRNA:   3'- -UGGUUGUGACCGaUGGUCaGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 35106 0.9 0.02061
Target:  5'- gAUCAugACUGGCgACCAGUCAGCAGCn -3'
miRNA:   3'- -UGGUugUGACCGaUGGUCAGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 34891 0.93 0.013826
Target:  5'- aACCAACACUGGCaACUGGUCAGCGGCn -3'
miRNA:   3'- -UGGUUGUGACCGaUGGUCAGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 35052 0.94 0.011146
Target:  5'- aACCAACACUGGCaACUGGUCAGCAGCn -3'
miRNA:   3'- -UGGUUGUGACCGaUGGUCAGUCGUCG- -5'
32003 3' -53.9 NC_006949.1 + 34998 0.96 0.008189
Target:  5'- aACCAACACUGGCaACUGGUCAGCGGCa -3'
miRNA:   3'- -UGGUUGUGACCGaUGGUCAGUCGUCG- -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.