miRNA display CGI


Results 1 - 20 of 35 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
18739 3' -63.8 NC_004682.1 + 2001 0.68 0.218862
Target:  5'- -aGCCCgacgUACGuCACCGCC-UGGgCGAa -3'
miRNA:   3'- agCGGGa---GUGC-GUGGCGGgACCgGCU- -5'
18739 3' -63.8 NC_004682.1 + 2299 0.68 0.23008
Target:  5'- -gGCCCcCAaGguCCGUCCgGGCCGAa -3'
miRNA:   3'- agCGGGaGUgCguGGCGGGaCCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 3191 0.68 0.202915
Target:  5'- aUCGCCCggUCcCGCAacgugaugaUCGgCCUGGCUGAa -3'
miRNA:   3'- -AGCGGG--AGuGCGU---------GGCgGGACCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 4217 0.69 0.183229
Target:  5'- gCGCCCgcagAUGCugCG-CCUGGUCGAg -3'
miRNA:   3'- aGCGGGag--UGCGugGCgGGACCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 7379 0.73 0.094595
Target:  5'- gCGUCUaCA-GCGuuGCCCUGGCCGAg -3'
miRNA:   3'- aGCGGGaGUgCGUggCGGGACCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 8660 0.66 0.29357
Target:  5'- -gGCCCUCACcgaggagcagGaCGCgGCCUcgcggGGCCGAg -3'
miRNA:   3'- agCGGGAGUG----------C-GUGgCGGGa----CCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 12750 0.66 0.30062
Target:  5'- aUCGCCCUUggcauaugggaGCGCGCugaCGCCCcgaaaccGGCCu- -3'
miRNA:   3'- -AGCGGGAG-----------UGCGUG---GCGGGa------CCGGcu -5'
18739 3' -63.8 NC_004682.1 + 13461 0.71 0.130481
Target:  5'- cUCaCCCggUACGCcCCgGCCCUGGCUGAg -3'
miRNA:   3'- -AGcGGGa-GUGCGuGG-CGGGACCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 13697 0.69 0.174032
Target:  5'- -aGCUCUCgGCGCACCGCCCgcaUCGAc -3'
miRNA:   3'- agCGGGAG-UGCGUGGCGGGaccGGCU- -5'
18739 3' -63.8 NC_004682.1 + 15712 0.68 0.213431
Target:  5'- aCGCCaUCGCGCAgUGCgUggUGGCCGGc -3'
miRNA:   3'- aGCGGgAGUGCGUgGCGgG--ACCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 23419 0.67 0.266012
Target:  5'- aCGCCaguGCGCcgacggcgauuguGCCGCCCgUGGCCa- -3'
miRNA:   3'- aGCGGgagUGCG-------------UGGCGGG-ACCGGcu -5'
18739 3' -63.8 NC_004682.1 + 25557 0.66 0.30062
Target:  5'- -gGCCgCUCACGCGCCacugggccacGCCgUgGGCCu- -3'
miRNA:   3'- agCGG-GAGUGCGUGG----------CGGgA-CCGGcu -5'
18739 3' -63.8 NC_004682.1 + 26323 0.71 0.130481
Target:  5'- -aGCCCcgguagUC-CGCGCCGaCCUGGCUGAu -3'
miRNA:   3'- agCGGG------AGuGCGUGGCgGGACCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 26439 0.69 0.16959
Target:  5'- gUUGCCCUCAgcguccaGCACCGUCgUG-CCGAu -3'
miRNA:   3'- -AGCGGGAGUg------CGUGGCGGgACcGGCU- -5'
18739 3' -63.8 NC_004682.1 + 27392 0.67 0.247811
Target:  5'- gCGUCCUCG-GUGaaGUCCUGGCCGu -3'
miRNA:   3'- aGCGGGAGUgCGUggCGGGACCGGCu -5'
18739 3' -63.8 NC_004682.1 + 28775 0.66 0.286649
Target:  5'- cUCcCCCUCACagGCCGUCa-GGCCGAg -3'
miRNA:   3'- -AGcGGGAGUGcgUGGCGGgaCCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 30325 0.68 0.23008
Target:  5'- uUCGgCCUCcCGCAuaGCCCUcugGGCCa- -3'
miRNA:   3'- -AGCgGGAGuGCGUggCGGGA---CCGGcu -5'
18739 3' -63.8 NC_004682.1 + 30906 0.68 0.210228
Target:  5'- gUCGCCCUUgaacuucaggacgaACGUGCCGCCgUcggaucgccgacgaGGCUGAu -3'
miRNA:   3'- -AGCGGGAG--------------UGCGUGGCGGgA--------------CCGGCU- -5'
18739 3' -63.8 NC_004682.1 + 32684 0.7 0.148871
Target:  5'- gCGCUCUugacCAUGCcggguagcucuGCCGCCUUGGCCGc -3'
miRNA:   3'- aGCGGGA----GUGCG-----------UGGCGGGACCGGCu -5'
18739 3' -63.8 NC_004682.1 + 32686 0.67 0.235868
Target:  5'- aUGUUCggCAgG-ACCGCCCUGGCCGc -3'
miRNA:   3'- aGCGGGa-GUgCgUGGCGGGACCGGCu -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.