miRNA display CGI


Results 1 - 20 of 43 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
22856 3' -49 NC_005137.2 + 125894 1.13 0.00657
Target:  5'- gCGCGCGUCAUCAAAAGAAAGCUCGCCu -3'
miRNA:   3'- -GCGCGCAGUAGUUUUCUUUCGAGCGG- -5'
22856 3' -49 NC_005137.2 + 74915 0.77 0.698261
Target:  5'- uGCGCGUCA-CAAAGGGuucgcacCUCGCCa -3'
miRNA:   3'- gCGCGCAGUaGUUUUCUuuc----GAGCGG- -5'
22856 3' -49 NC_005137.2 + 95213 0.75 0.799635
Target:  5'- aCGCGUGUCGUgAAGGGcuAGCcaaUUGCCa -3'
miRNA:   3'- -GCGCGCAGUAgUUUUCuuUCG---AGCGG- -5'
22856 3' -49 NC_005137.2 + 93573 0.75 0.827234
Target:  5'- aCGCGcCGUCGUCGcAAAGAuaAGGCcucguugCGCCa -3'
miRNA:   3'- -GCGC-GCAGUAGU-UUUCU--UUCGa------GCGG- -5'
22856 3' -49 NC_005137.2 + 8923 0.74 0.844659
Target:  5'- uGUGUGUCGUCAAAGuGAcccGGC-CGCCg -3'
miRNA:   3'- gCGCGCAGUAGUUUU-CUu--UCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 42444 0.73 0.876104
Target:  5'- cCGCGCGcaaUCAUCA--AGAAaauuuauAGCUaCGCCa -3'
miRNA:   3'- -GCGCGC---AGUAGUuuUCUU-------UCGA-GCGG- -5'
22856 3' -49 NC_005137.2 + 87321 0.73 0.90518
Target:  5'- aGCGCGUCG-CGAAAcGGcgcAGCUgGCCa -3'
miRNA:   3'- gCGCGCAGUaGUUUU-CUu--UCGAgCGG- -5'
22856 3' -49 NC_005137.2 + 37423 0.71 0.957606
Target:  5'- cCGCGCGUUuggAUCAGcguGAuuGC-CGCCg -3'
miRNA:   3'- -GCGCGCAG---UAGUUuu-CUuuCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 106773 0.7 0.96499
Target:  5'- gGCGagcacaguagauUGUCAgCAugGGGAGGCUUGCCa -3'
miRNA:   3'- gCGC------------GCAGUaGUuuUCUUUCGAGCGG- -5'
22856 3' -49 NC_005137.2 + 124605 0.7 0.971422
Target:  5'- aCGUGCGUCAUCGccGGucAGUUcacauucaacCGCCg -3'
miRNA:   3'- -GCGCGCAGUAGUuuUCuuUCGA----------GCGG- -5'
22856 3' -49 NC_005137.2 + 71 0.7 0.97374
Target:  5'- gCGCGCGUCGUCGuaccugccggcaaAAAGAAGGUcuucaauUUGUa -3'
miRNA:   3'- -GCGCGCAGUAGU-------------UUUCUUUCG-------AGCGg -5'
22856 3' -49 NC_005137.2 + 69007 0.7 0.974297
Target:  5'- aGCGCGUgCAaacugacgAAGAGAuuGUUCGCCa -3'
miRNA:   3'- gCGCGCA-GUag------UUUUCUuuCGAGCGG- -5'
22856 3' -49 NC_005137.2 + 12213 0.7 0.974297
Target:  5'- aCGCGCGcauguaacgcuUCAUCGcuGGAuuguAGGC-CGCCu -3'
miRNA:   3'- -GCGCGC-----------AGUAGUuuUCU----UUCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 128391 0.69 0.980332
Target:  5'- aCGCGUGUUauuuaauugacguuuGUgCAAAAGAcuaAAGgUCGCCa -3'
miRNA:   3'- -GCGCGCAG---------------UA-GUUUUCU---UUCgAGCGG- -5'
22856 3' -49 NC_005137.2 + 88813 0.69 0.983722
Target:  5'- gCGCGCGUCGcgucccugUCGGcGGAcgcGAcGCUgGCCa -3'
miRNA:   3'- -GCGCGCAGU--------AGUUuUCU---UU-CGAgCGG- -5'
22856 3' -49 NC_005137.2 + 1452 0.69 0.984496
Target:  5'- -cCGCGUCAgaacgCAAAAGAuuuucaaugcgcgccAcaauGCUCGCCa -3'
miRNA:   3'- gcGCGCAGUa----GUUUUCU---------------Uu---CGAGCGG- -5'
22856 3' -49 NC_005137.2 + 2176 0.68 0.990262
Target:  5'- gCGCGCGcuUCAUCAAGuuu-AGUUUGCg -3'
miRNA:   3'- -GCGCGC--AGUAGUUUucuuUCGAGCGg -5'
22856 3' -49 NC_005137.2 + 73908 0.67 0.992643
Target:  5'- aGgGCGUCAUCGuuuu--GGCgCGCCc -3'
miRNA:   3'- gCgCGCAGUAGUuuucuuUCGaGCGG- -5'
22856 3' -49 NC_005137.2 + 104349 0.67 0.994536
Target:  5'- gCGUGCGUCGUCGu------GUUCGCg -3'
miRNA:   3'- -GCGCGCAGUAGUuuucuuuCGAGCGg -5'
22856 3' -49 NC_005137.2 + 68008 0.67 0.995323
Target:  5'- gGCGCcgcaccauggGUCcgCcgaAAAAGAAAGCguugUCGCCg -3'
miRNA:   3'- gCGCG----------CAGuaG---UUUUCUUUCG----AGCGG- -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.