miRNA display CGI


Results 1 - 20 of 79 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
23263 3' -58.5 NC_005259.1 + 32807 1.1 0.000698
Target:  5'- aGGUCGAUCCCGACGCACCGCCGUCGAu -3'
miRNA:   3'- -CCAGCUAGGGCUGCGUGGCGGCAGCU- -5'
23263 3' -58.5 NC_005259.1 + 48390 0.78 0.135087
Target:  5'- uGUCGuugcCgCCGACGC-CCGCCGUCGAg -3'
miRNA:   3'- cCAGCua--G-GGCUGCGuGGCGGCAGCU- -5'
23263 3' -58.5 NC_005259.1 + 22647 0.76 0.178244
Target:  5'- cGGUCGAcgccgcccaccacaUCgCCGACGCacugACCGCCGcCGAu -3'
miRNA:   3'- -CCAGCU--------------AG-GGCUGCG----UGGCGGCaGCU- -5'
23263 3' -58.5 NC_005259.1 + 58695 0.75 0.219759
Target:  5'- gGGUCGG-CUCGuCGcCGCCGCCGUCa- -3'
miRNA:   3'- -CCAGCUaGGGCuGC-GUGGCGGCAGcu -5'
23263 3' -58.5 NC_005259.1 + 46868 0.74 0.236686
Target:  5'- cGGUCGAggCuuGAauCGCGCCGCCGcccgCGAu -3'
miRNA:   3'- -CCAGCUa-GggCU--GCGUGGCGGCa---GCU- -5'
23263 3' -58.5 NC_005259.1 + 27512 0.74 0.236686
Target:  5'- aGGUCGA-CgUGucCGCACaCGCCGUCGAg -3'
miRNA:   3'- -CCAGCUaGgGCu-GCGUG-GCGGCAGCU- -5'
23263 3' -58.5 NC_005259.1 + 42204 0.74 0.242567
Target:  5'- cGUCGcgauggaugCCCGcCGCGCCGCCGUCc- -3'
miRNA:   3'- cCAGCua-------GGGCuGCGUGGCGGCAGcu -5'
23263 3' -58.5 NC_005259.1 + 66217 0.74 0.248569
Target:  5'- cGGUCGcg-CCGACGCACaCGCgGUCGu -3'
miRNA:   3'- -CCAGCuagGGCUGCGUG-GCGgCAGCu -5'
23263 3' -58.5 NC_005259.1 + 30817 0.74 0.260941
Target:  5'- aGUCGGguagUCCGGCGCGCCGagGUCGGc -3'
miRNA:   3'- cCAGCUa---GGGCUGCGUGGCggCAGCU- -5'
23263 3' -58.5 NC_005259.1 + 37722 0.74 0.267312
Target:  5'- ---aGA-CCCGAgGCACCGCCGcCGAc -3'
miRNA:   3'- ccagCUaGGGCUgCGUGGCGGCaGCU- -5'
23263 3' -58.5 NC_005259.1 + 45613 0.73 0.280432
Target:  5'- -cUCGGUCUCGAUGC-CCGCCGggcCGGg -3'
miRNA:   3'- ccAGCUAGGGCUGCGuGGCGGCa--GCU- -5'
23263 3' -58.5 NC_005259.1 + 6253 0.73 0.285143
Target:  5'- gGGUCGAuaUCCCGcAC-CGCCGCCGcgccuaccucguggUCGAg -3'
miRNA:   3'- -CCAGCU--AGGGC-UGcGUGGCGGC--------------AGCU- -5'
23263 3' -58.5 NC_005259.1 + 17721 0.73 0.294058
Target:  5'- --cCGAUCaCCGACGCACCGUgGcugcUCGAc -3'
miRNA:   3'- ccaGCUAG-GGCUGCGUGGCGgC----AGCU- -5'
23263 3' -58.5 NC_005259.1 + 50680 0.73 0.294058
Target:  5'- cGUCGGUgCCGACgagGCGCUGCuCGUCGu -3'
miRNA:   3'- cCAGCUAgGGCUG---CGUGGCG-GCAGCu -5'
23263 3' -58.5 NC_005259.1 + 18186 0.72 0.308195
Target:  5'- aGGUCGAcCCCGAcauCGCACCcaaGCagGUCGAc -3'
miRNA:   3'- -CCAGCUaGGGCU---GCGUGG---CGg-CAGCU- -5'
23263 3' -58.5 NC_005259.1 + 26397 0.72 0.3221
Target:  5'- --gCGAUUCCGACGCcgggcgcggcgguGCCGCCGUaGAa -3'
miRNA:   3'- ccaGCUAGGGCUGCG-------------UGGCGGCAgCU- -5'
23263 3' -58.5 NC_005259.1 + 18286 0.72 0.322845
Target:  5'- -cUCGAcgCCCGACGaGCCGCCGUUc- -3'
miRNA:   3'- ccAGCUa-GGGCUGCgUGGCGGCAGcu -5'
23263 3' -58.5 NC_005259.1 + 41319 0.72 0.330363
Target:  5'- aGGUCGAcCUCGAaaaggGCGgUGCCGUCGGa -3'
miRNA:   3'- -CCAGCUaGGGCUg----CGUgGCGGCAGCU- -5'
23263 3' -58.5 NC_005259.1 + 10736 0.71 0.353683
Target:  5'- cGGU-GAUCaCCG-CGCGCUGCCGggCGAu -3'
miRNA:   3'- -CCAgCUAG-GGCuGCGUGGCGGCa-GCU- -5'
23263 3' -58.5 NC_005259.1 + 10543 0.71 0.353683
Target:  5'- gGGUCGAUCUucuggaugugcuCGAucaauCGCGCCGCC-UCGAc -3'
miRNA:   3'- -CCAGCUAGG------------GCU-----GCGUGGCGGcAGCU- -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.