miRNA display CGI


Results 1 - 12 of 12 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
30485 3' -52.4 NC_006548.1 + 663 0.68 0.623584
Target:  5'- uGCCAG----GGCC-UGGGCAUcGAGCa -3'
miRNA:   3'- -CGGUCagguUCGGuACCCGUAaCUUG- -5'
30485 3' -52.4 NC_006548.1 + 7282 0.66 0.727594
Target:  5'- uGCCGGUCgAGGUCAaccaggcgcUGGGUgaUGAcgGCa -3'
miRNA:   3'- -CGGUCAGgUUCGGU---------ACCCGuaACU--UG- -5'
30485 3' -52.4 NC_006548.1 + 16922 0.69 0.565498
Target:  5'- -gCGG-CCGAccGCCGUGGGCAUaccGAACu -3'
miRNA:   3'- cgGUCaGGUU--CGGUACCCGUAa--CUUG- -5'
30485 3' -52.4 NC_006548.1 + 17686 0.66 0.748768
Target:  5'- gGCCAGgugagcugccUCCAgccccucGGCCAuggccUGGGCGUauugaucaagacUGAGCu -3'
miRNA:   3'- -CGGUC----------AGGU-------UCGGU-----ACCCGUA------------ACUUG- -5'
30485 3' -52.4 NC_006548.1 + 20088 0.67 0.658622
Target:  5'- cCCAG-CCAuaGGCC--GGcGCAUUGAGCu -3'
miRNA:   3'- cGGUCaGGU--UCGGuaCC-CGUAACUUG- -5'
30485 3' -52.4 NC_006548.1 + 24360 0.66 0.760812
Target:  5'- gGCCGGUCUggGCCGgaaacgugccGGCcUUGAc- -3'
miRNA:   3'- -CGGUCAGGuuCGGUac--------CCGuAACUug -5'
30485 3' -52.4 NC_006548.1 + 29176 0.7 0.520054
Target:  5'- gGCCAGUUCGcugacgagaccGGCCugcUGGGCGgccUGGAUa -3'
miRNA:   3'- -CGGUCAGGU-----------UCGGu--ACCCGUa--ACUUG- -5'
30485 3' -52.4 NC_006548.1 + 29612 0.66 0.74987
Target:  5'- aGCCAGUCUugcGGCCGcgaaUGGGCu------ -3'
miRNA:   3'- -CGGUCAGGu--UCGGU----ACCCGuaacuug -5'
30485 3' -52.4 NC_006548.1 + 31158 0.69 0.550595
Target:  5'- uGUCAGUCCuuccugauugcguaGAGCCAcGGGUugccgGAGCg -3'
miRNA:   3'- -CGGUCAGG--------------UUCGGUaCCCGuaa--CUUG- -5'
30485 3' -52.4 NC_006548.1 + 34946 1.11 0.000744
Target:  5'- uGCCAGUCCAAGCCAUGGGCAUUGAACc -3'
miRNA:   3'- -CGGUCAGGUUCGGUACCCGUAACUUG- -5'
30485 3' -52.4 NC_006548.1 + 35308 0.69 0.530166
Target:  5'- cGCCAGUCgAggauucaccgguuGGUCcgGGGCGccGAACa -3'
miRNA:   3'- -CGGUCAGgU-------------UCGGuaCCCGUaaCUUG- -5'
30485 3' -52.4 NC_006548.1 + 37526 0.68 0.635271
Target:  5'- cGCCAGcCC-AGCCGUGgcGGCAUgu-ACu -3'
miRNA:   3'- -CGGUCaGGuUCGGUAC--CCGUAacuUG- -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.