miRNA display CGI


Results 1 - 20 of 48 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
27448 3' -62.9 NC_005869.1 + 15595 0.66 0.235186
Target:  5'- cGGCgcaggcgCUCCgCGCCgGCCAUccugggggugcgccgCAGCCGCc -3'
miRNA:   3'- -UCGaa-----GAGG-GCGG-CGGUG---------------GUCGGCGc -5'
27448 3' -62.9 NC_005869.1 + 24559 0.66 0.232768
Target:  5'- aGGUuccgUUCUCCUGgCGCCG-CGGCgGCGu -3'
miRNA:   3'- -UCG----AAGAGGGCgGCGGUgGUCGgCGC- -5'
27448 3' -62.9 NC_005869.1 + 33847 0.66 0.226815
Target:  5'- ----aUUCCCGCCaGCCGgCuccGCCGCGa -3'
miRNA:   3'- ucgaaGAGGGCGG-CGGUgGu--CGGCGC- -5'
27448 3' -62.9 NC_005869.1 + 18346 0.66 0.225054
Target:  5'- aGGCcgUCUCCCacGCCGuggaCCGCCggugcaacagcagcAGCUGCGg -3'
miRNA:   3'- -UCGa-AGAGGG--CGGC----GGUGG--------------UCGGCGC- -5'
27448 3' -62.9 NC_005869.1 + 15641 0.66 0.215295
Target:  5'- gAGCg---CCugCGCCGCCGCCGGgUGCu -3'
miRNA:   3'- -UCGaagaGG--GCGGCGGUGGUCgGCGc -5'
27448 3' -62.9 NC_005869.1 + 23302 0.67 0.209175
Target:  5'- cGCUgcccgUUCUCGCUGuugagauccaucuCCACCAGCUGCu -3'
miRNA:   3'- uCGAa----GAGGGCGGC-------------GGUGGUCGGCGc -5'
27448 3' -62.9 NC_005869.1 + 27928 0.67 0.198958
Target:  5'- cAGCga---CCGCCGCCACCcgauggAGaCCGCa -3'
miRNA:   3'- -UCGaagagGGCGGCGGUGG------UC-GGCGc -5'
27448 3' -62.9 NC_005869.1 + 9509 0.67 0.193758
Target:  5'- gGGCgg--CCgCGCCGUCACCGagaccaugcGCCGCa -3'
miRNA:   3'- -UCGaagaGG-GCGGCGGUGGU---------CGGCGc -5'
27448 3' -62.9 NC_005869.1 + 23436 0.67 0.186676
Target:  5'- gGGCgUCUucagaCCCGCCGCCuucaccacaaaguCCAGCaggaaGCGg -3'
miRNA:   3'- -UCGaAGA-----GGGCGGCGGu------------GGUCGg----CGC- -5'
27448 3' -62.9 NC_005869.1 + 16737 0.67 0.183712
Target:  5'- gGGCacggCggCCGCCGCCcgcuCCAgcGCCGCGg -3'
miRNA:   3'- -UCGaa--GagGGCGGCGGu---GGU--CGGCGC- -5'
27448 3' -62.9 NC_005869.1 + 10661 0.67 0.183712
Target:  5'- cGCUcucggUCgccCUCGCCGUCGCUgacgcGGCCGCGc -3'
miRNA:   3'- uCGA-----AGa--GGGCGGCGGUGG-----UCGGCGC- -5'
27448 3' -62.9 NC_005869.1 + 18525 0.68 0.17413
Target:  5'- cGGCcaCUCCCGCgCGCCAauc-CCGCGg -3'
miRNA:   3'- -UCGaaGAGGGCG-GCGGUggucGGCGC- -5'
27448 3' -62.9 NC_005869.1 + 11791 0.68 0.169508
Target:  5'- aGGCcgcgCUCaCCcCCGCCGCC-GCCGCc -3'
miRNA:   3'- -UCGaa--GAG-GGcGGCGGUGGuCGGCGc -5'
27448 3' -62.9 NC_005869.1 + 7478 0.68 0.164106
Target:  5'- cAGCUUCaaccugcccaacCCCGCCuuCCGCCcgcGCCGCGa -3'
miRNA:   3'- -UCGAAGa-----------GGGCGGc-GGUGGu--CGGCGC- -5'
27448 3' -62.9 NC_005869.1 + 28598 0.68 0.160592
Target:  5'- cGCgc--CCCGCCGCUGCCA-CCGCc -3'
miRNA:   3'- uCGaagaGGGCGGCGGUGGUcGGCGc -5'
27448 3' -62.9 NC_005869.1 + 18564 0.68 0.156294
Target:  5'- aAGCg---CCCGCCGCCGcCCAGgagaucaucauCCGCu -3'
miRNA:   3'- -UCGaagaGGGCGGCGGU-GGUC-----------GGCGc -5'
27448 3' -62.9 NC_005869.1 + 15470 0.68 0.156294
Target:  5'- aGGCgguagCCCGgCGCCGCC-GCgCGCGg -3'
miRNA:   3'- -UCGaaga-GGGCgGCGGUGGuCG-GCGC- -5'
27448 3' -62.9 NC_005869.1 + 18723 0.68 0.15587
Target:  5'- cGCUcaccaccaccaccUCcUCCGCUGCCGCC-GCCGCc -3'
miRNA:   3'- uCGA-------------AGaGGGCGGCGGUGGuCGGCGc -5'
27448 3' -62.9 NC_005869.1 + 23865 0.68 0.151687
Target:  5'- cGCgcgCUUCCGCCGCUcCUgcacgggcggagaGGCCGCGc -3'
miRNA:   3'- uCGaa-GAGGGCGGCGGuGG-------------UCGGCGC- -5'
27448 3' -62.9 NC_005869.1 + 9841 0.69 0.14801
Target:  5'- cGCaUCcgCCUGCaGCgCGCCGGCCGCa -3'
miRNA:   3'- uCGaAGa-GGGCGgCG-GUGGUCGGCGc -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.