miRNA display CGI


Results 1 - 20 of 20 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
8046 3' -57.7 NC_001973.1 + 123755 0.66 0.851847
Target:  5'- aACCGCauCACgCACGAGUCgaUCgGCGAGc -3'
miRNA:   3'- -UGGCG--GUG-GUGCUCAGacAGgUGCUU- -5'
8046 3' -57.7 NC_001973.1 + 123028 0.66 0.843946
Target:  5'- cGCCGCCAgCGuCGAGUCcaGUCUGuCGAc -3'
miRNA:   3'- -UGGCGGUgGU-GCUCAGa-CAGGU-GCUu -5'
8046 3' -57.7 NC_001973.1 + 37096 0.66 0.843946
Target:  5'- gACCGCCGCCGagcCGAcUCUGcUUCGCGu- -3'
miRNA:   3'- -UGGCGGUGGU---GCUcAGAC-AGGUGCuu -5'
8046 3' -57.7 NC_001973.1 + 154034 0.66 0.841538
Target:  5'- cUUGUCGCCGggcccgaugcaguuUGAGUCUGUCgACGAGc -3'
miRNA:   3'- uGGCGGUGGU--------------GCUCAGACAGgUGCUU- -5'
8046 3' -57.7 NC_001973.1 + 18203 0.66 0.835856
Target:  5'- cACCGCCGCCGCGuAG-CUG-CgGcCGAAc -3'
miRNA:   3'- -UGGCGGUGGUGC-UCaGACaGgU-GCUU- -5'
8046 3' -57.7 NC_001973.1 + 96441 0.66 0.835036
Target:  5'- cCCGCCACCGCc-GUCUugggcccGUCgACGAGc -3'
miRNA:   3'- uGGCGGUGGUGcuCAGA-------CAGgUGCUU- -5'
8046 3' -57.7 NC_001973.1 + 8222 0.66 0.827584
Target:  5'- gGCCGCCaaGCCGCGAGaggugCUGaUCCGauCGGc -3'
miRNA:   3'- -UGGCGG--UGGUGCUCa----GAC-AGGU--GCUu -5'
8046 3' -57.7 NC_001973.1 + 61347 0.67 0.810523
Target:  5'- uCCGCCACCGCGuAGUCgugCCggcaggcgcgcaGCGAc -3'
miRNA:   3'- uGGCGGUGGUGC-UCAGacaGG------------UGCUu -5'
8046 3' -57.7 NC_001973.1 + 119327 0.67 0.80175
Target:  5'- -gCGcCCGCCGCGAGUUcGaUCUACGAc -3'
miRNA:   3'- ugGC-GGUGGUGCUCAGaC-AGGUGCUu -5'
8046 3' -57.7 NC_001973.1 + 68812 0.67 0.792826
Target:  5'- aACCGCCACC--GAGaUCUcGcCCACGAc -3'
miRNA:   3'- -UGGCGGUGGugCUC-AGA-CaGGUGCUu -5'
8046 3' -57.7 NC_001973.1 + 27867 0.67 0.792826
Target:  5'- gGCCGCgGCCGCGGGcgcgggcgcgcUCUcgCCGCGAc -3'
miRNA:   3'- -UGGCGgUGGUGCUC-----------AGAcaGGUGCUu -5'
8046 3' -57.7 NC_001973.1 + 143766 0.67 0.783759
Target:  5'- aGCCGCuCACCAauCGGGU--GUCCACGu- -3'
miRNA:   3'- -UGGCG-GUGGU--GCUCAgaCAGGUGCuu -5'
8046 3' -57.7 NC_001973.1 + 121497 0.67 0.783759
Target:  5'- aGCCGCCAgCGCGAaGUC-GUUCagcGCGAAc -3'
miRNA:   3'- -UGGCGGUgGUGCU-CAGaCAGG---UGCUU- -5'
8046 3' -57.7 NC_001973.1 + 104274 0.67 0.774559
Target:  5'- cGCCGCCGCCGgGcuGGUCgUGUCUcuguuCGAAa -3'
miRNA:   3'- -UGGCGGUGGUgC--UCAG-ACAGGu----GCUU- -5'
8046 3' -57.7 NC_001973.1 + 139822 0.67 0.771774
Target:  5'- aGCCGCCGuuGCGAuucacggacgacgcGcacCUGUCCGCGGAc -3'
miRNA:   3'- -UGGCGGUggUGCU--------------Ca--GACAGGUGCUU- -5'
8046 3' -57.7 NC_001973.1 + 72728 0.68 0.736595
Target:  5'- cCCGCCGCCACGcg---GUCgACGAAa -3'
miRNA:   3'- uGGCGGUGGUGCucagaCAGgUGCUU- -5'
8046 3' -57.7 NC_001973.1 + 109857 0.68 0.726858
Target:  5'- cGCCGCCGCCgACGAGgacgCggcgcgcggcGUCUACGGc -3'
miRNA:   3'- -UGGCGGUGG-UGCUCa---Ga---------CAGGUGCUu -5'
8046 3' -57.7 NC_001973.1 + 69717 0.69 0.687197
Target:  5'- gGCCGCCACCGCG------UCCACGGGa -3'
miRNA:   3'- -UGGCGGUGGUGCucagacAGGUGCUU- -5'
8046 3' -57.7 NC_001973.1 + 28443 0.7 0.616379
Target:  5'- cGCCGCCGCCACGAucucgggcgucaGcacgcccaguauUCgGUCCACGGu -3'
miRNA:   3'- -UGGCGGUGGUGCU------------C------------AGaCAGGUGCUu -5'
8046 3' -57.7 NC_001973.1 + 53924 0.7 0.616379
Target:  5'- gUCGCCACCACGGugagCUcGUCCACGu- -3'
miRNA:   3'- uGGCGGUGGUGCUca--GA-CAGGUGCuu -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.