miRNA display CGI


Results 1 - 20 of 60 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
14399 3' -61.3 NC_003521.1 + 223713 0.66 0.838738
Target:  5'- aCgACCU-CGCCGGGUacgacggcGGGUCCg- -3'
miRNA:   3'- -GgUGGAcGCGGCCCAgua-----CCCAGGgg -5'
14399 3' -61.3 NC_003521.1 + 31628 0.66 0.838738
Target:  5'- gCCACCgcgGCcgacgGUgGGGUCAucUGGaGgcUCCCCg -3'
miRNA:   3'- -GGUGGa--CG-----CGgCCCAGU--ACC-C--AGGGG- -5'
14399 3' -61.3 NC_003521.1 + 23227 0.66 0.838738
Target:  5'- gCC-CCUGCugguCCGGGgcggacCcgGGGUCCUg -3'
miRNA:   3'- -GGuGGACGc---GGCCCa-----GuaCCCAGGGg -5'
14399 3' -61.3 NC_003521.1 + 149419 0.66 0.83798
Target:  5'- gUCGCCcugUGgGCCGGGauuugggUCggGGGUCCg- -3'
miRNA:   3'- -GGUGG---ACgCGGCCC-------AGuaCCCAGGgg -5'
14399 3' -61.3 NC_003521.1 + 21520 0.66 0.83798
Target:  5'- aCUGCCUGCccaacacGCUGGccuUCAUGGG-CCCg -3'
miRNA:   3'- -GGUGGACG-------CGGCCc--AGUACCCaGGGg -5'
14399 3' -61.3 NC_003521.1 + 121612 0.66 0.836459
Target:  5'- -aACCUGCuGCCGGGcaagaccgagaagaUCAaGcGG-CCCCa -3'
miRNA:   3'- ggUGGACG-CGGCCC--------------AGUaC-CCaGGGG- -5'
14399 3' -61.3 NC_003521.1 + 15646 0.66 0.834166
Target:  5'- gCCAUCUucgagcggcagcacaGCGCCGaGGUgGugcgcgacUGGGUCCgCa -3'
miRNA:   3'- -GGUGGA---------------CGCGGC-CCAgU--------ACCCAGGgG- -5'
14399 3' -61.3 NC_003521.1 + 88613 0.66 0.831087
Target:  5'- gCCACgUGCGCCGuGaccUCGUccGGGUCacagCCCa -3'
miRNA:   3'- -GGUGgACGCGGC-Cc--AGUA--CCCAG----GGG- -5'
14399 3' -61.3 NC_003521.1 + 87929 0.66 0.831087
Target:  5'- gCCGCC-GCGCCGGG-CAUGc-UCUUCa -3'
miRNA:   3'- -GGUGGaCGCGGCCCaGUACccAGGGG- -5'
14399 3' -61.3 NC_003521.1 + 118910 0.66 0.831087
Target:  5'- cUCGCCcucgucgGCGCCGcGG-CGUGGGcggcggcgUCCCg -3'
miRNA:   3'- -GGUGGa------CGCGGC-CCaGUACCC--------AGGGg -5'
14399 3' -61.3 NC_003521.1 + 149639 0.66 0.815327
Target:  5'- gCCGCCggcgagGUGCucuccuggugCGGGcugcccgacaUCGUGGG-CCCCg -3'
miRNA:   3'- -GGUGGa-----CGCG----------GCCC----------AGUACCCaGGGG- -5'
14399 3' -61.3 NC_003521.1 + 55653 0.66 0.815327
Target:  5'- uCCACaggUGCGCCaccucGUCGUcGGG-CCCCa -3'
miRNA:   3'- -GGUGg--ACGCGGcc---CAGUA-CCCaGGGG- -5'
14399 3' -61.3 NC_003521.1 + 158357 0.66 0.810486
Target:  5'- aCCAcCCUGCgGCCGGacgauGUCAUcgGGGUCaacaucagcaaguauCCCu -3'
miRNA:   3'- -GGU-GGACG-CGGCC-----CAGUA--CCCAG---------------GGG- -5'
14399 3' -61.3 NC_003521.1 + 39027 0.66 0.80723
Target:  5'- gCCGCCgaagGauuGCUGGG-CGucUGGGUgCCCa -3'
miRNA:   3'- -GGUGGa---Cg--CGGCCCaGU--ACCCAgGGG- -5'
14399 3' -61.3 NC_003521.1 + 180123 0.67 0.790637
Target:  5'- gCgACCcGCGCCGcc-CccGGGUCCCCc -3'
miRNA:   3'- -GgUGGaCGCGGCccaGuaCCCAGGGG- -5'
14399 3' -61.3 NC_003521.1 + 92163 0.67 0.781298
Target:  5'- uCCACCggcuCGCCcggGGGUCG-GGGcgaugcccuggccUCCCCu -3'
miRNA:   3'- -GGUGGac--GCGG---CCCAGUaCCC-------------AGGGG- -5'
14399 3' -61.3 NC_003521.1 + 103538 0.67 0.773554
Target:  5'- gCCACCcGCaGCUccaGGUCGcugGGGcCCCCg -3'
miRNA:   3'- -GGUGGaCG-CGGc--CCAGUa--CCCaGGGG- -5'
14399 3' -61.3 NC_003521.1 + 196450 0.67 0.773554
Target:  5'- gCACCUcgGCcUCGGG-CGUGGGccgcagCCCCa -3'
miRNA:   3'- gGUGGA--CGcGGCCCaGUACCCa-----GGGG- -5'
14399 3' -61.3 NC_003521.1 + 227917 0.67 0.764847
Target:  5'- gCCACCaGCGCCaGGcuGUCuGUGGuaGUCCCa -3'
miRNA:   3'- -GGUGGaCGCGG-CC--CAG-UACC--CAGGGg -5'
14399 3' -61.3 NC_003521.1 + 206244 0.67 0.764847
Target:  5'- gCGCCUGCaGcCCGGcGUCAgccuGGUgcaCCCCg -3'
miRNA:   3'- gGUGGACG-C-GGCC-CAGUac--CCA---GGGG- -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.