miRNA display CGI


Results 1 - 18 of 18 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
16193 3' -58.5 NC_004065.1 + 175673 0.66 0.908705
Target:  5'- cUGUGUGUCCCUCUuGGUcauacucguUCUCGUc- -3'
miRNA:   3'- uGCGCACAGGGGGGuCCA---------AGAGCAcg -5'
16193 3' -58.5 NC_004065.1 + 206774 0.66 0.908705
Target:  5'- cCGCGUcgGUCCCCCUcuGaugccgCUCGUGUc -3'
miRNA:   3'- uGCGCA--CAGGGGGGucCaa----GAGCACG- -5'
16193 3' -58.5 NC_004065.1 + 165670 0.66 0.902214
Target:  5'- gACGCGauccgagaggaucUG-CCaUCCCAGGgcCUCGUGUg -3'
miRNA:   3'- -UGCGC-------------ACaGG-GGGGUCCaaGAGCACG- -5'
16193 3' -58.5 NC_004065.1 + 7388 0.66 0.896713
Target:  5'- gACGCGgg-CCCUCCucGGUaCUCGcGCa -3'
miRNA:   3'- -UGCGCacaGGGGGGu-CCAaGAGCaCG- -5'
16193 3' -58.5 NC_004065.1 + 120994 0.66 0.890403
Target:  5'- uGCGCGUcGUCCUCCucgcggaaCAGGaUCUUGaagGCg -3'
miRNA:   3'- -UGCGCA-CAGGGGG--------GUCCaAGAGCa--CG- -5'
16193 3' -58.5 NC_004065.1 + 117349 0.66 0.883887
Target:  5'- gACG-GUGUCgCCCgAGGcgUUCagCGUGCa -3'
miRNA:   3'- -UGCgCACAGgGGGgUCC--AAGa-GCACG- -5'
16193 3' -58.5 NC_004065.1 + 148489 0.66 0.883887
Target:  5'- gGCGCGUGa-UCCUCGGGUccgUCUCGUc- -3'
miRNA:   3'- -UGCGCACagGGGGGUCCA---AGAGCAcg -5'
16193 3' -58.5 NC_004065.1 + 195088 0.66 0.883887
Target:  5'- cGCGCGgcgcagaCCCCCAGGggcgucagCUCGccgGCg -3'
miRNA:   3'- -UGCGCacag---GGGGGUCCaa------GAGCa--CG- -5'
16193 3' -58.5 NC_004065.1 + 174551 0.67 0.870254
Target:  5'- cGCGCGUGUUUUCCUuuguGGUgaaUCGUGa -3'
miRNA:   3'- -UGCGCACAGGGGGGu---CCAag-AGCACg -5'
16193 3' -58.5 NC_004065.1 + 219317 0.67 0.848367
Target:  5'- -aGCGa-UCUCCCCAGGUagcggugagccaUCUCgGUGCu -3'
miRNA:   3'- ugCGCacAGGGGGGUCCA------------AGAG-CACG- -5'
16193 3' -58.5 NC_004065.1 + 80323 0.67 0.840708
Target:  5'- gGCGCGgccgcggCCCCCCGGcGUUCgaccUGCa -3'
miRNA:   3'- -UGCGCaca----GGGGGGUC-CAAGagc-ACG- -5'
16193 3' -58.5 NC_004065.1 + 229596 0.68 0.833669
Target:  5'- -gGCGgcuccaggggGUucaCCCCCCGGGcgcggaaaaacaccgUCUCGUGCg -3'
miRNA:   3'- ugCGCa---------CA---GGGGGGUCCa--------------AGAGCACG- -5'
16193 3' -58.5 NC_004065.1 + 143659 0.68 0.832878
Target:  5'- gACGCGUGga-CCUCGGGaccgaaUUCUCuGUGCu -3'
miRNA:   3'- -UGCGCACaggGGGGUCC------AAGAG-CACG- -5'
16193 3' -58.5 NC_004065.1 + 37247 0.68 0.81673
Target:  5'- gACGgGUGuaggccUCCCCCCGGGUgaguaccaGUGUa -3'
miRNA:   3'- -UGCgCAC------AGGGGGGUCCAagag----CACG- -5'
16193 3' -58.5 NC_004065.1 + 92063 0.69 0.786171
Target:  5'- aACGCGUGcaacgagacguucaCCCCCCugaccaaGUUCUgCGUGCa -3'
miRNA:   3'- -UGCGCACa-------------GGGGGGuc-----CAAGA-GCACG- -5'
16193 3' -58.5 NC_004065.1 + 47930 0.7 0.690063
Target:  5'- uACGCGUcUCUCCCCAGGaugCUaUGUGUc -3'
miRNA:   3'- -UGCGCAcAGGGGGGUCCaa-GA-GCACG- -5'
16193 3' -58.5 NC_004065.1 + 186342 0.74 0.471261
Target:  5'- cAUGUGcaacgGUCCCCUCgAGGUUCUCG-GCg -3'
miRNA:   3'- -UGCGCa----CAGGGGGG-UCCAAGAGCaCG- -5'
16193 3' -58.5 NC_004065.1 + 191489 1.1 0.002587
Target:  5'- cACGCGUGUCCCCCCAGGUUCUCGUGCc -3'
miRNA:   3'- -UGCGCACAGGGGGGUCCAAGAGCACG- -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.