miRNA display CGI


Results 1 - 20 of 40 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
28049 3' -52.9 NC_005887.1 + 12052 0.66 0.76172
Target:  5'- -gUgAUCgGCCUGAcugcgaaCGUCGUGCGCGg -3'
miRNA:   3'- aaAgUAGaUGGGCUa------GUAGCGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 37763 0.66 0.76172
Target:  5'- --cCAaCUugCCG-UCGUCGuUGCGCGg -3'
miRNA:   3'- aaaGUaGAugGGCuAGUAGC-GCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 25439 0.66 0.750995
Target:  5'- -gUCGUCUugCCGAUCugcUCG-GCuGCa -3'
miRNA:   3'- aaAGUAGAugGGCUAGu--AGCgCG-CGc -5'
28049 3' -52.9 NC_005887.1 + 1420 0.66 0.750995
Target:  5'- -cUCGgcgUugCCGAacUCGgugCGCGCGCGg -3'
miRNA:   3'- aaAGUag-AugGGCU--AGUa--GCGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 28279 0.66 0.750995
Target:  5'- -aUCAUCggcACgCCGAg---CGCGCGCa -3'
miRNA:   3'- aaAGUAGa--UG-GGCUaguaGCGCGCGc -5'
28049 3' -52.9 NC_005887.1 + 1372 0.66 0.740138
Target:  5'- --aCAUCcuguCCCGcgCGUCGCGCuCGu -3'
miRNA:   3'- aaaGUAGau--GGGCuaGUAGCGCGcGC- -5'
28049 3' -52.9 NC_005887.1 + 31488 0.66 0.740138
Target:  5'- gUUCGUagucaCCGAUUgccgCGCGCGCGg -3'
miRNA:   3'- aAAGUAgaug-GGCUAGua--GCGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 36703 0.66 0.740138
Target:  5'- --cCAUCUGCuuCCGcgucacGUCGUCGuCGUGCGa -3'
miRNA:   3'- aaaGUAGAUG--GGC------UAGUAGC-GCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 26160 0.66 0.740138
Target:  5'- --aCGUCcucgUCGAUCguGUCGCGCGCGa -3'
miRNA:   3'- aaaGUAGaug-GGCUAG--UAGCGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 37479 0.66 0.740138
Target:  5'- -aUCGUCgcgAgCgGAUCgAUCGUGCGCu -3'
miRNA:   3'- aaAGUAGa--UgGgCUAG-UAGCGCGCGc -5'
28049 3' -52.9 NC_005887.1 + 14538 0.66 0.729163
Target:  5'- --cCGUCggcgGCgcgUCGAUCggcauGUCGCGCGCGg -3'
miRNA:   3'- aaaGUAGa---UG---GGCUAG-----UAGCGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 29920 0.67 0.70691
Target:  5'- ---gGUCcAUCgCGAUCGcgCGCGCGCGg -3'
miRNA:   3'- aaagUAGaUGG-GCUAGUa-GCGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 1263 0.67 0.70691
Target:  5'- gUUCcUCUGCCUcGUCcacgaGCGCGCGg -3'
miRNA:   3'- aAAGuAGAUGGGcUAGuag--CGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 8972 0.67 0.70691
Target:  5'- -cUCAUcCUGCCCGccgg-CGCGUGCa -3'
miRNA:   3'- aaAGUA-GAUGGGCuaguaGCGCGCGc -5'
28049 3' -52.9 NC_005887.1 + 39181 0.67 0.684339
Target:  5'- --gCAgCUGCCCGAacUUGUCGagGCGCGg -3'
miRNA:   3'- aaaGUaGAUGGGCU--AGUAGCg-CGCGC- -5'
28049 3' -52.9 NC_005887.1 + 17595 0.67 0.672966
Target:  5'- --cCGUCaauCCCGcgC-UCGCGCGCa -3'
miRNA:   3'- aaaGUAGau-GGGCuaGuAGCGCGCGc -5'
28049 3' -52.9 NC_005887.1 + 30195 0.67 0.672966
Target:  5'- --aCGUC-ACgCGAUCGUCaccaaucugGCGCGCGa -3'
miRNA:   3'- aaaGUAGaUGgGCUAGUAG---------CGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 40154 0.68 0.661551
Target:  5'- -aUCGguuugcgCUGCCCGAUCAcCGCG-GCc -3'
miRNA:   3'- aaAGUa------GAUGGGCUAGUaGCGCgCGc -5'
28049 3' -52.9 NC_005887.1 + 40356 0.68 0.661551
Target:  5'- --cCGUCgagcgcgGCCgugcCGcUCGUCGCGCGCGa -3'
miRNA:   3'- aaaGUAGa------UGG----GCuAGUAGCGCGCGC- -5'
28049 3' -52.9 NC_005887.1 + 26955 0.68 0.650106
Target:  5'- -aUCcgCUGCCCGcgCG-CGaucaGCGCGg -3'
miRNA:   3'- aaAGuaGAUGGGCuaGUaGCg---CGCGC- -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.