miRNA display CGI


Results 1 - 20 of 26 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
26404 3' -54.8 NC_005345.2 + 35450 1.11 0.000752
Target:  5'- uCCUGUCGCCCGUGUUCACAGCCAUCGg -3'
miRNA:   3'- -GGACAGCGGGCACAAGUGUCGGUAGC- -5'
26404 3' -54.8 NC_005345.2 + 35045 0.82 0.087324
Target:  5'- uCCUGUCGCCgGUGUUCuCGGCgAUCu -3'
miRNA:   3'- -GGACAGCGGgCACAAGuGUCGgUAGc -5'
26404 3' -54.8 NC_005345.2 + 21223 0.76 0.235879
Target:  5'- -gUGUCGUCCGUG-UCGgAGUCGUCGg -3'
miRNA:   3'- ggACAGCGGGCACaAGUgUCGGUAGC- -5'
26404 3' -54.8 NC_005345.2 + 4618 0.75 0.261641
Target:  5'- uCCcGUUGCCCGgGUUCGCucgauauccgGGCCGUCGc -3'
miRNA:   3'- -GGaCAGCGGGCaCAAGUG----------UCGGUAGC- -5'
26404 3' -54.8 NC_005345.2 + 5680 0.71 0.424578
Target:  5'- aCCUGUgCGUCgGUGagCGCGGUCGUCu -3'
miRNA:   3'- -GGACA-GCGGgCACaaGUGUCGGUAGc -5'
26404 3' -54.8 NC_005345.2 + 21263 0.7 0.504673
Target:  5'- --cGUCGUCCGUGUcgUCGCcGUCGUCc -3'
miRNA:   3'- ggaCAGCGGGCACA--AGUGuCGGUAGc -5'
26404 3' -54.8 NC_005345.2 + 40575 0.69 0.557899
Target:  5'- aCUGUgaCGCCCGcaUGgacgaUCGCAGCCggCGa -3'
miRNA:   3'- gGACA--GCGGGC--ACa----AGUGUCGGuaGC- -5'
26404 3' -54.8 NC_005345.2 + 7351 0.68 0.579656
Target:  5'- -gUGUgGCCCGcgGUggCGCAGCCGggCGg -3'
miRNA:   3'- ggACAgCGGGCa-CAa-GUGUCGGUa-GC- -5'
26404 3' -54.8 NC_005345.2 + 41593 0.68 0.634658
Target:  5'- cUCgGUCGUgaugCCGUG--CACGGCCGUCGc -3'
miRNA:   3'- -GGaCAGCG----GGCACaaGUGUCGGUAGC- -5'
26404 3' -54.8 NC_005345.2 + 20198 0.68 0.639071
Target:  5'- cCUUGUCGUgCGUGUccccauagacccgcCGCAGCgCAUCGc -3'
miRNA:   3'- -GGACAGCGgGCACAa-------------GUGUCG-GUAGC- -5'
26404 3' -54.8 NC_005345.2 + 18779 0.67 0.645689
Target:  5'- aCCUG-CGCCCGccgcggGCuGCCGUCGg -3'
miRNA:   3'- -GGACaGCGGGCacaag-UGuCGGUAGC- -5'
26404 3' -54.8 NC_005345.2 + 14905 0.67 0.667705
Target:  5'- --gGUCGaggaCCGcGUUCGCGGCCGUg- -3'
miRNA:   3'- ggaCAGCg---GGCaCAAGUGUCGGUAgc -5'
26404 3' -54.8 NC_005345.2 + 23564 0.67 0.683042
Target:  5'- aCCUGUCGgCCGcguccgagcugcggcUGcgggUCGCGGCguUCGg -3'
miRNA:   3'- -GGACAGCgGGC---------------ACa---AGUGUCGguAGC- -5'
26404 3' -54.8 NC_005345.2 + 17645 0.67 0.689587
Target:  5'- gCCgGUCGgucacgaCCGUGUUCGCggGGCCGcCGa -3'
miRNA:   3'- -GGaCAGCg------GGCACAAGUG--UCGGUaGC- -5'
26404 3' -54.8 NC_005345.2 + 44973 0.67 0.689587
Target:  5'- gCCUGcCGcCCCGUGagCGCcuGCCgcGUCGa -3'
miRNA:   3'- -GGACaGC-GGGCACaaGUGu-CGG--UAGC- -5'
26404 3' -54.8 NC_005345.2 + 16696 0.66 0.711246
Target:  5'- gCCUgcggGUCGUCCGUGaugUCgagguagaGCGuGCCGUCGg -3'
miRNA:   3'- -GGA----CAGCGGGCACa--AG--------UGU-CGGUAGC- -5'
26404 3' -54.8 NC_005345.2 + 32452 0.66 0.711246
Target:  5'- gCCUGUCGgCCGUGaugUCgGCgAGCCGg-- -3'
miRNA:   3'- -GGACAGCgGGCACa--AG-UG-UCGGUagc -5'
26404 3' -54.8 NC_005345.2 + 35087 0.66 0.711246
Target:  5'- uCUUGuUCGCgaucgUCGUGgUCGCGGUCGUCGu -3'
miRNA:   3'- -GGAC-AGCG-----GGCACaAGUGUCGGUAGC- -5'
26404 3' -54.8 NC_005345.2 + 14711 0.66 0.721965
Target:  5'- --cGUCG-CCGUGUUgUGCAGCgCGUCGc -3'
miRNA:   3'- ggaCAGCgGGCACAA-GUGUCG-GUAGC- -5'
26404 3' -54.8 NC_005345.2 + 28157 0.66 0.721965
Target:  5'- --cGUCGCCCGgucggcGUUCcucgccGCGGCCAagGg -3'
miRNA:   3'- ggaCAGCGGGCa-----CAAG------UGUCGGUagC- -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.