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
7273 3' -62.3 NC_001900.1 + 10246 0.66 0.371491
Target:  5'- -uGCGGCCCugauggccucaGCGGAGgCCGGaugucaGCGGCg -3'
miRNA:   3'- gcCGCUGGG-----------CGUCUUgGGCC------UGCCGa -5'
7273 3' -62.3 NC_001900.1 + 31320 0.66 0.371491
Target:  5'- uCGGUGccGCCCGUgua--CCGGACGGUg -3'
miRNA:   3'- -GCCGC--UGGGCGucuugGGCCUGCCGa -5'
7273 3' -62.3 NC_001900.1 + 31467 0.66 0.371491
Target:  5'- uCGGCcAUCagugGUAGAuccCCCGGACGGUg -3'
miRNA:   3'- -GCCGcUGGg---CGUCUu--GGGCCUGCCGa -5'
7273 3' -62.3 NC_001900.1 + 24789 0.66 0.363206
Target:  5'- gGGCGACaCCaCAGccaccuuCUCGGGCGGUg -3'
miRNA:   3'- gCCGCUG-GGcGUCuu-----GGGCCUGCCGa -5'
7273 3' -62.3 NC_001900.1 + 16862 0.66 0.355051
Target:  5'- uGGaucuGACCCGCAcAGCgUGGAuCGGCg -3'
miRNA:   3'- gCCg---CUGGGCGUcUUGgGCCU-GCCGa -5'
7273 3' -62.3 NC_001900.1 + 6213 0.66 0.355051
Target:  5'- uGGCGauguacGCCUGUAGGuACUCGGGguUGGCUg -3'
miRNA:   3'- gCCGC------UGGGCGUCU-UGGGCCU--GCCGA- -5'
7273 3' -62.3 NC_001900.1 + 34980 0.66 0.355051
Target:  5'- -cGUGuCCCGCG---UCCGGGCGGCg -3'
miRNA:   3'- gcCGCuGGGCGUcuuGGGCCUGCCGa -5'
7273 3' -62.3 NC_001900.1 + 33156 0.66 0.347025
Target:  5'- uGGCGGCagcaaGCcGAACuCCGGugGCGGCg -3'
miRNA:   3'- gCCGCUGgg---CGuCUUG-GGCC--UGCCGa -5'
7273 3' -62.3 NC_001900.1 + 147 0.66 0.33913
Target:  5'- uGGUGGCUCaCAGcGCCUGGGCgaGGCg -3'
miRNA:   3'- gCCGCUGGGcGUCuUGGGCCUG--CCGa -5'
7273 3' -62.3 NC_001900.1 + 23185 0.66 0.334456
Target:  5'- gGGcCGACCagaaGUgguuccacgucugcuGGAGCCCGGA-GGCUa -3'
miRNA:   3'- gCC-GCUGGg---CG---------------UCUUGGGCCUgCCGA- -5'
7273 3' -62.3 NC_001900.1 + 23302 0.66 0.331366
Target:  5'- aGGCGAgCCUGCA--GCUCGGcgAUGGCa -3'
miRNA:   3'- gCCGCU-GGGCGUcuUGGGCC--UGCCGa -5'
7273 3' -62.3 NC_001900.1 + 30080 0.66 0.331366
Target:  5'- cCGGCGcagacgcuGCCCGCGuccgaCUGGACGGUg -3'
miRNA:   3'- -GCCGC--------UGGGCGUcuug-GGCCUGCCGa -5'
7273 3' -62.3 NC_001900.1 + 1172 0.66 0.330597
Target:  5'- aGGCGGCgguggagCCGcCGGAagcgGCCgGGGCGGUUu -3'
miRNA:   3'- gCCGCUG-------GGC-GUCU----UGGgCCUGCCGA- -5'
7273 3' -62.3 NC_001900.1 + 1804 0.67 0.323734
Target:  5'- uCGGCGACUCGCuGAugUCGagcGACaGCg -3'
miRNA:   3'- -GCCGCUGGGCGuCUugGGC---CUGcCGa -5'
7273 3' -62.3 NC_001900.1 + 23521 0.67 0.323734
Target:  5'- cCGGUGAggCUGCAGGccucuuCCgGGGCGGCUc -3'
miRNA:   3'- -GCCGCUg-GGCGUCUu-----GGgCCUGCCGA- -5'
7273 3' -62.3 NC_001900.1 + 29655 0.67 0.323734
Target:  5'- cCGGCGGCugCCGguGGACCgcucuCGGAcguacuCGGCg -3'
miRNA:   3'- -GCCGCUG--GGCguCUUGG-----GCCU------GCCGa -5'
7273 3' -62.3 NC_001900.1 + 39117 0.67 0.316234
Target:  5'- uCGGCGcuaugcgcucCCCGau-GACCUGGACGGCc -3'
miRNA:   3'- -GCCGCu---------GGGCgucUUGGGCCUGCCGa -5'
7273 3' -62.3 NC_001900.1 + 1249 0.67 0.308865
Target:  5'- gCGGCGGCa-GCGGAGCU--GGCGGCg -3'
miRNA:   3'- -GCCGCUGggCGUCUUGGgcCUGCCGa -5'
7273 3' -62.3 NC_001900.1 + 9904 0.67 0.308865
Target:  5'- aGGCGA-CUGCGGAGCUgaUGGGCGuGCc -3'
miRNA:   3'- gCCGCUgGGCGUCUUGG--GCCUGC-CGa -5'
7273 3' -62.3 NC_001900.1 + 11557 0.67 0.308865
Target:  5'- cCGGCGACCCGac---CCCGGugGuCa -3'
miRNA:   3'- -GCCGCUGGGCgucuuGGGCCugCcGa -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.