miRNA display CGI


Results 1 - 17 of 17 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
33413 3' -55.3 NC_007605.1 + 123370 0.66 0.938229
Target:  5'- aGCcCUGuGCCUGGCCCUCUcccc-GGCa -3'
miRNA:   3'- -UGaGAC-UGGACCGGGAGAaacacCUG- -5'
33413 3' -55.3 NC_007605.1 + 20865 0.66 0.933281
Target:  5'- gGCUCUGcUCUGGCgcggCCUCggcUG-GGACa -3'
miRNA:   3'- -UGAGACuGGACCG----GGAGaa-ACaCCUG- -5'
33413 3' -55.3 NC_007605.1 + 123856 0.66 0.928091
Target:  5'- uCUgUGACCUGGCCCa----GcGGACa -3'
miRNA:   3'- uGAgACUGGACCGGGagaaaCaCCUG- -5'
33413 3' -55.3 NC_007605.1 + 143999 0.66 0.91698
Target:  5'- -gUCaUGACCUGGCCUgugCcUUGUcccauGGACa -3'
miRNA:   3'- ugAG-ACUGGACCGGGa--GaAACA-----CCUG- -5'
33413 3' -55.3 NC_007605.1 + 63382 0.67 0.898504
Target:  5'- --gCUGACCUGGuCCCggaCUU--UGGGCg -3'
miRNA:   3'- ugaGACUGGACC-GGGa--GAAacACCUG- -5'
33413 3' -55.3 NC_007605.1 + 66089 0.67 0.89187
Target:  5'- -gUCccggGACagGGCCCcCUUUGUGGACc -3'
miRNA:   3'- ugAGa---CUGgaCCGGGaGAAACACCUG- -5'
33413 3' -55.3 NC_007605.1 + 38502 0.67 0.877912
Target:  5'- cGCUCcGACCUGGCCCUUUc---GGcCu -3'
miRNA:   3'- -UGAGaCUGGACCGGGAGAaacaCCuG- -5'
33413 3' -55.3 NC_007605.1 + 16663 0.67 0.877912
Target:  5'- aACUUUGA-CUGGCCCUacauucUGGACa -3'
miRNA:   3'- -UGAGACUgGACCGGGAgaaac-ACCUG- -5'
33413 3' -55.3 NC_007605.1 + 65523 0.67 0.877912
Target:  5'- cCUCggggugcagGGCCUGGCCgaugUCUUUGcGGACc -3'
miRNA:   3'- uGAGa--------CUGGACCGGg---AGAAACaCCUG- -5'
33413 3' -55.3 NC_007605.1 + 107157 0.68 0.855317
Target:  5'- uCUCcGGCCUGGCCCgCUgca-GGGCu -3'
miRNA:   3'- uGAGaCUGGACCGGGaGAaacaCCUG- -5'
33413 3' -55.3 NC_007605.1 + 45902 0.68 0.855317
Target:  5'- aACUCggagGugCUGGCUggagagagggaCUCguaggUGUGGACg -3'
miRNA:   3'- -UGAGa---CugGACCGG-----------GAGaa---ACACCUG- -5'
33413 3' -55.3 NC_007605.1 + 125779 0.68 0.830874
Target:  5'- cACUCaGAugcccCCgUGGCCUUCUUUGaGGACu -3'
miRNA:   3'- -UGAGaCU-----GG-ACCGGGAGAAACaCCUG- -5'
33413 3' -55.3 NC_007605.1 + 153882 0.69 0.813648
Target:  5'- gACUC-GAagCUGGCCCUCggggUUGagGGGCg -3'
miRNA:   3'- -UGAGaCUg-GACCGGGAGa---AACa-CCUG- -5'
33413 3' -55.3 NC_007605.1 + 107083 0.7 0.748538
Target:  5'- cCUCUcGGCCUGGgUCUCggcaGUGGGCu -3'
miRNA:   3'- uGAGA-CUGGACCgGGAGaaa-CACCUG- -5'
33413 3' -55.3 NC_007605.1 + 41183 0.71 0.668082
Target:  5'- -gUCaUGACCUGGCCUgugcCUUgucccGUGGACa -3'
miRNA:   3'- ugAG-ACUGGACCGGGa---GAAa----CACCUG- -5'
33413 3' -55.3 NC_007605.1 + 98190 0.72 0.626845
Target:  5'- gACUCaugcgGGCCUGGgCCgggCUcagUGUGGACg -3'
miRNA:   3'- -UGAGa----CUGGACCgGGa--GAa--ACACCUG- -5'
33413 3' -55.3 NC_007605.1 + 9894 1.1 0.002953
Target:  5'- uACUCUGACCUGGCCCUCUUUGUGGACg -3'
miRNA:   3'- -UGAGACUGGACCGGGAGAAACACCUG- -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.