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
19255 3' -55.7 NC_004684.1 + 14096 0.66 0.787801
Target:  5'- uGACcGGGUGgug-UGGcUCAGCC-CCg -3'
miRNA:   3'- gCUGaCCCACaugaGCC-AGUCGGuGG- -5'
19255 3' -55.7 NC_004684.1 + 51632 0.66 0.787801
Target:  5'- uCGGCgcaccuuucGGUGUACgCGGcCAGUCGCUg -3'
miRNA:   3'- -GCUGac-------CCACAUGaGCCaGUCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 976 0.66 0.758365
Target:  5'- gCGACUccgGGGcGUuCUCGGcCAG-CACCa -3'
miRNA:   3'- -GCUGA---CCCaCAuGAGCCaGUCgGUGG- -5'
19255 3' -55.7 NC_004684.1 + 2714 0.66 0.748293
Target:  5'- uCGACUGGGacGUACgcaaGGU--GCCGCUg -3'
miRNA:   3'- -GCUGACCCa-CAUGag--CCAguCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 48937 0.66 0.748293
Target:  5'- -aGCUcGGUGccgucguccUGCUCGGgagccacgUCGGCCGCCg -3'
miRNA:   3'- gcUGAcCCAC---------AUGAGCC--------AGUCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 50008 0.67 0.706991
Target:  5'- uGACcGGGUGUGCgcaCcGUCGGCgGCa -3'
miRNA:   3'- gCUGaCCCACAUGa--GcCAGUCGgUGg -5'
19255 3' -55.7 NC_004684.1 + 47581 0.67 0.68588
Target:  5'- uCGGCUcaGUGUGCUCGGcgauguaGGCCGCa -3'
miRNA:   3'- -GCUGAccCACAUGAGCCag-----UCGGUGg -5'
19255 3' -55.7 NC_004684.1 + 27688 0.67 0.68588
Target:  5'- uCGACagcGaGGUGgACUCGGUCaucucGGCgGCCg -3'
miRNA:   3'- -GCUGa--C-CCACaUGAGCCAG-----UCGgUGG- -5'
19255 3' -55.7 NC_004684.1 + 46595 0.68 0.675246
Target:  5'- gCGGCUGGcguugcgugccgGUGgcUUCGG--GGCCACCg -3'
miRNA:   3'- -GCUGACC------------CACauGAGCCagUCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 27286 0.68 0.668846
Target:  5'- gGGCUGaucagcacccuguucGGUGgccUGCUCGGUgCGGCCAgCu -3'
miRNA:   3'- gCUGAC---------------CCAC---AUGAGCCA-GUCGGUgG- -5'
19255 3' -55.7 NC_004684.1 + 63540 0.68 0.653871
Target:  5'- gCGGCgugccuucGGUGUGgucgUCGGUCGGCaCGCCg -3'
miRNA:   3'- -GCUGac------CCACAUg---AGCCAGUCG-GUGG- -5'
19255 3' -55.7 NC_004684.1 + 26580 0.68 0.643151
Target:  5'- uGGCgcgcgGcGGUGUGCgcgGGUUcGCCACCg -3'
miRNA:   3'- gCUGa----C-CCACAUGag-CCAGuCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 4021 0.68 0.63242
Target:  5'- uCGGCUGGcGcGUcggccGCUCGGUgcgcugggCGGUCACCg -3'
miRNA:   3'- -GCUGACC-CaCA-----UGAGCCA--------GUCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 43733 0.68 0.63242
Target:  5'- aGGCcgucGGUGUACcCGGUCAGCagcgguGCCa -3'
miRNA:   3'- gCUGac--CCACAUGaGCCAGUCGg-----UGG- -5'
19255 3' -55.7 NC_004684.1 + 33481 0.68 0.621689
Target:  5'- gCGGCUGcGGUGgACgCGG-CGGCgGCCc -3'
miRNA:   3'- -GCUGAC-CCACaUGaGCCaGUCGgUGG- -5'
19255 3' -55.7 NC_004684.1 + 54184 0.68 0.621689
Target:  5'- uGGCUGGucgcccGCUCGauuUCAGCCACCa -3'
miRNA:   3'- gCUGACCcaca--UGAGCc--AGUCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 40146 0.68 0.621689
Target:  5'- cCGACaggaUGGGaucgGUGaucgCGGUCAGCgGCCc -3'
miRNA:   3'- -GCUG----ACCCa---CAUga--GCCAGUCGgUGG- -5'
19255 3' -55.7 NC_004684.1 + 55819 0.69 0.600263
Target:  5'- gGGCUGGuGUGgaACUCGcGgUAGCCGCUg -3'
miRNA:   3'- gCUGACC-CACa-UGAGC-CaGUCGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 49385 0.69 0.589585
Target:  5'- cCGAUguUGccgccGUACUCGGUCAgcGCCACCa -3'
miRNA:   3'- -GCUG--ACcca--CAUGAGCCAGU--CGGUGG- -5'
19255 3' -55.7 NC_004684.1 + 32716 0.7 0.557784
Target:  5'- gCGuCUGGGgguUGCUCGcGUUGGCCuGCCg -3'
miRNA:   3'- -GCuGACCCac-AUGAGC-CAGUCGG-UGG- -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.