miRNA display CGI


Results 1 - 20 of 29 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
138 3' -63.4 AC_000006.1 + 222 0.66 0.229745
Target:  5'- -uCCCGCgGCCAcGCCCGGAuaugagguaauuCUGGg -3'
miRNA:   3'- gcGGGCGgCGGUcCGGGUCUu-----------GACCg -5'
138 3' -63.4 AC_000006.1 + 3766 0.66 0.236922
Target:  5'- aGCCCugaGCCGCCAGcuggccGCCCuGAcccaGCaGGUg -3'
miRNA:   3'- gCGGG---CGGCGGUC------CGGGuCU----UGaCCG- -5'
138 3' -63.4 AC_000006.1 + 5313 0.73 0.073644
Target:  5'- gGCCaCGCCGCCgAGGCCCucaacuacGAGCUcauGGUc -3'
miRNA:   3'- gCGG-GCGGCGG-UCCGGGu-------CUUGA---CCG- -5'
138 3' -63.4 AC_000006.1 + 6288 0.66 0.225062
Target:  5'- aGUCUGCCGCCcuuGcGCgagCAGAACgggGGCa -3'
miRNA:   3'- gCGGGCGGCGGu--C-CGg--GUCUUGa--CCG- -5'
138 3' -63.4 AC_000006.1 + 8044 0.8 0.019622
Target:  5'- aGCCCGCgcgggaGCCAGGUCCAGAuCUcGGCg -3'
miRNA:   3'- gCGGGCGg-----CGGUCCGGGUCUuGA-CCG- -5'
138 3' -63.4 AC_000006.1 + 8123 0.71 0.1031
Target:  5'- cCGCCC-CCGCCGcGCCgAGAucuggacCUGGCu -3'
miRNA:   3'- -GCGGGcGGCGGUcCGGgUCUu------GACCG- -5'
138 3' -63.4 AC_000006.1 + 9637 0.71 0.089675
Target:  5'- aGCCgGUgucaggGCCAGGCCUGGGGCaUGGCc -3'
miRNA:   3'- gCGGgCGg-----CGGUCCGGGUCUUG-ACCG- -5'
138 3' -63.4 AC_000006.1 + 10006 0.71 0.094833
Target:  5'- gCGCCCGggGCCAGGUCCucGAGCaugaGGCg -3'
miRNA:   3'- -GCGGGCggCGGUCCGGGu-CUUGa---CCG- -5'
138 3' -63.4 AC_000006.1 + 10052 0.71 0.089675
Target:  5'- gGCCCcggGCgCGCCGGccaCCCAGcGCUGGCc -3'
miRNA:   3'- gCGGG---CG-GCGGUCc--GGGUCuUGACCG- -5'
138 3' -63.4 AC_000006.1 + 11562 0.66 0.243046
Target:  5'- aGCCUG-CGCCGGGCgCUGGuagggGGCg -3'
miRNA:   3'- gCGGGCgGCGGUCCG-GGUCuuga-CCG- -5'
138 3' -63.4 AC_000006.1 + 11611 0.67 0.182572
Target:  5'- gCGCCCGgCG-CAGGCUCAGcaucAGCUcGCg -3'
miRNA:   3'- -GCGGGCgGCgGUCCGGGUC----UUGAcCG- -5'
138 3' -63.4 AC_000006.1 + 11653 0.68 0.159758
Target:  5'- gCGCCUuggagGCCGCCuacGGUCCAGAGgacUUGGa -3'
miRNA:   3'- -GCGGG-----CGGCGGu--CCGGGUCUU---GACCg -5'
138 3' -63.4 AC_000006.1 + 11832 0.69 0.139548
Target:  5'- uGCagCGCCGCCcuuauggcgGGGUCCGGGGCUuGCu -3'
miRNA:   3'- gCGg-GCGGCGG---------UCCGGGUCUUGAcCG- -5'
138 3' -63.4 AC_000006.1 + 15244 0.66 0.21371
Target:  5'- cCGCCCGCgcuuguaagCGCCccacGGaGCgCGGAAgUGGCc -3'
miRNA:   3'- -GCGGGCG---------GCGG----UC-CGgGUCUUgACCG- -5'
138 3' -63.4 AC_000006.1 + 15412 0.69 0.13214
Target:  5'- cCGUCCGCCcGCC-GGCUCuugcguCUGGCa -3'
miRNA:   3'- -GCGGGCGG-CGGuCCGGGucuu--GACCG- -5'
138 3' -63.4 AC_000006.1 + 16031 0.71 0.100272
Target:  5'- cCGCuCUGCCGCCuGGUCCAGGAUg--- -3'
miRNA:   3'- -GCG-GGCGGCGGuCCGGGUCUUGaccg -5'
138 3' -63.4 AC_000006.1 + 16332 0.68 0.165873
Target:  5'- gGUCUGCaCGcCCAGGCCCGGcGCcaccugcuugauggGGCg -3'
miRNA:   3'- gCGGGCG-GC-GGUCCGGGUCuUGa-------------CCG- -5'
138 3' -63.4 AC_000006.1 + 16599 0.66 0.230928
Target:  5'- gCGUuuGCUgGCUGGGCgCCuGcGGCUGGCg -3'
miRNA:   3'- -GCGggCGG-CGGUCCG-GGuC-UUGACCG- -5'
138 3' -63.4 AC_000006.1 + 16854 0.72 0.087196
Target:  5'- gGCCCGCCGCCGgcggcGGUUCAGGccGCUGccuGCc -3'
miRNA:   3'- gCGGGCGGCGGU-----CCGGGUCU--UGAC---CG- -5'
138 3' -63.4 AC_000006.1 + 17605 1.11 0.000059
Target:  5'- cCGCCCGCCGCCAGGCCCAGAACUGGCa -3'
miRNA:   3'- -GCGGGCGGCGGUCCGGGUCUUGACCG- -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.