miRNA display CGI


Results 1 - 16 of 16 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
28078 5' -47.5 NC_005887.1 + 5172 0.66 0.970626
Target:  5'- aGGACGccgagccGACGcAGGAGAAcgugaaGCGGCUGAu -3'
miRNA:   3'- -CUUGCca-----CUGC-UUCUUUU------UGCCGACU- -5'
28078 5' -47.5 NC_005887.1 + 40895 0.66 0.967154
Target:  5'- cGACGGUGACGAcGAGccGCcgaaGGCUa- -3'
miRNA:   3'- cUUGCCACUGCUuCUUuuUG----CCGAcu -5'
28078 5' -47.5 NC_005887.1 + 17668 0.66 0.967154
Target:  5'- aGGCGGU--CGAGGAugccggccGCGGCUGGa -3'
miRNA:   3'- cUUGCCAcuGCUUCUuuu-----UGCCGACU- -5'
28078 5' -47.5 NC_005887.1 + 10524 0.66 0.963401
Target:  5'- gGAACGGggcGGCGGcaAGAAGGGCaugaGGUUGGa -3'
miRNA:   3'- -CUUGCCa--CUGCU--UCUUUUUG----CCGACU- -5'
28078 5' -47.5 NC_005887.1 + 9476 0.67 0.955019
Target:  5'- -uACGGUGGCGAcGAAcGAccCGGCcGAc -3'
miRNA:   3'- cuUGCCACUGCUuCUUuUU--GCCGaCU- -5'
28078 5' -47.5 NC_005887.1 + 7592 0.67 0.955019
Target:  5'- aGAACGGcGACcuGAAGGAcuucGACGGCUucGAa -3'
miRNA:   3'- -CUUGCCaCUG--CUUCUUu---UUGCCGA--CU- -5'
28078 5' -47.5 NC_005887.1 + 12801 0.67 0.945424
Target:  5'- uGACccucGUGaACGAGGGGAAGCaGCUGAg -3'
miRNA:   3'- cUUGc---CAC-UGCUUCUUUUUGcCGACU- -5'
28078 5' -47.5 NC_005887.1 + 35204 0.68 0.940159
Target:  5'- cGAAUGGguuCGGAGAAguuGAACGGCg-- -3'
miRNA:   3'- -CUUGCCacuGCUUCUU---UUUGCCGacu -5'
28078 5' -47.5 NC_005887.1 + 19184 0.68 0.928675
Target:  5'- uGAGCGGcgcgGGCGuGGAGAcaGGCGGCg-- -3'
miRNA:   3'- -CUUGCCa---CUGCuUCUUU--UUGCCGacu -5'
28078 5' -47.5 NC_005887.1 + 17438 0.68 0.926842
Target:  5'- cAACGGUGccgauccggcugcuGCGAAGAAGAccgagcgcGCGGCa-- -3'
miRNA:   3'- cUUGCCAC--------------UGCUUCUUUU--------UGCCGacu -5'
28078 5' -47.5 NC_005887.1 + 2194 0.68 0.915912
Target:  5'- -cGCGGUGAuCGGGcagcgcaaaccGAugGGCGGCUGGc -3'
miRNA:   3'- cuUGCCACU-GCUU-----------CUuuUUGCCGACU- -5'
28078 5' -47.5 NC_005887.1 + 6188 0.68 0.915912
Target:  5'- -cACGGUGACGcgccgcgacGAGGAAAcCGGCg-- -3'
miRNA:   3'- cuUGCCACUGC---------UUCUUUUuGCCGacu -5'
28078 5' -47.5 NC_005887.1 + 37632 0.7 0.870115
Target:  5'- cGGCGGUuccagaaACGGAGGAAu-CGGCUGAu -3'
miRNA:   3'- cUUGCCAc------UGCUUCUUUuuGCCGACU- -5'
28078 5' -47.5 NC_005887.1 + 34103 0.73 0.704656
Target:  5'- uGAGCGGUGACGccGAGcgcuCGGCaGAg -3'
miRNA:   3'- -CUUGCCACUGCuuCUUuuu-GCCGaCU- -5'
28078 5' -47.5 NC_005887.1 + 23026 0.75 0.575137
Target:  5'- aGGCGGUGGCGAAGGuaucGAACGuaUGGg -3'
miRNA:   3'- cUUGCCACUGCUUCUu---UUUGCcgACU- -5'
28078 5' -47.5 NC_005887.1 + 8277 1.1 0.004219
Target:  5'- aGAACGGUGACGAAGAAAAACGGCUGAc -3'
miRNA:   3'- -CUUGCCACUGCUUCUUUUUGCCGACU- -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.