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
18258 3' -55.3 NC_004681.1 + 30839 0.66 0.854184
Target:  5'- cCCggacCCAUCGUGgaGGACGGCAcgccgCCCGc -3'
miRNA:   3'- -GGa---GGUGGCACa-UCUGCUGUca---GGGC- -5'
18258 3' -55.3 NC_004681.1 + 7441 0.66 0.829034
Target:  5'- gCUUCGCCGcGgcGGCGGgguCAGcCCCGg -3'
miRNA:   3'- gGAGGUGGCaCauCUGCU---GUCaGGGC- -5'
18258 3' -55.3 NC_004681.1 + 57089 0.66 0.811297
Target:  5'- gCCUCCGCCaggacggacuaGUGccGACGAUcuugaaggccaAGUCCCc -3'
miRNA:   3'- -GGAGGUGG-----------CACauCUGCUG-----------UCAGGGc -5'
18258 3' -55.3 NC_004681.1 + 22271 0.67 0.764083
Target:  5'- aCUCCG-CGUGgcGGCGugGGcgCCCu -3'
miRNA:   3'- gGAGGUgGCACauCUGCugUCa-GGGc -5'
18258 3' -55.3 NC_004681.1 + 56130 0.67 0.754225
Target:  5'- gUCUCCACgGUGaAGGCGAUgcggaGGUCgCCc -3'
miRNA:   3'- -GGAGGUGgCACaUCUGCUG-----UCAG-GGc -5'
18258 3' -55.3 NC_004681.1 + 38928 0.68 0.734175
Target:  5'- cCCUCCacgcuGCCGccGUAGGCccgGAUGGUCUCGg -3'
miRNA:   3'- -GGAGG-----UGGCa-CAUCUG---CUGUCAGGGC- -5'
18258 3' -55.3 NC_004681.1 + 47021 0.68 0.724003
Target:  5'- gCCU-CACCGUagGUAGugccaGCGAacCAGUCCCGc -3'
miRNA:   3'- -GGAgGUGGCA--CAUC-----UGCU--GUCAGGGC- -5'
18258 3' -55.3 NC_004681.1 + 75630 0.68 0.713746
Target:  5'- gCUCUACCGUGUcGugGAUcGUUCgGg -3'
miRNA:   3'- gGAGGUGGCACAuCugCUGuCAGGgC- -5'
18258 3' -55.3 NC_004681.1 + 1784 0.68 0.703415
Target:  5'- cCCUCCucACCGUcGUAGGCcaGGCAGagcgaguacaUCCCa -3'
miRNA:   3'- -GGAGG--UGGCA-CAUCUG--CUGUC----------AGGGc -5'
18258 3' -55.3 NC_004681.1 + 3556 0.69 0.69302
Target:  5'- gUCUCCACgGUGgGGACGGgcGUCaCCGa -3'
miRNA:   3'- -GGAGGUGgCACaUCUGCUguCAG-GGC- -5'
18258 3' -55.3 NC_004681.1 + 396 0.69 0.661548
Target:  5'- gCUUCCGCgGgucgGU-GAUGACAGUUCCa -3'
miRNA:   3'- -GGAGGUGgCa---CAuCUGCUGUCAGGGc -5'
18258 3' -55.3 NC_004681.1 + 59319 0.69 0.640424
Target:  5'- aCUCCugCGUGgccaggaccccGGACGGCGGagCCCu -3'
miRNA:   3'- gGAGGugGCACa----------UCUGCUGUCa-GGGc -5'
18258 3' -55.3 NC_004681.1 + 31663 0.71 0.577157
Target:  5'- gCUUCugCGUcugcucucgGUAGACG-CGGUCCCa -3'
miRNA:   3'- gGAGGugGCA---------CAUCUGCuGUCAGGGc -5'
18258 3' -55.3 NC_004681.1 + 56039 0.73 0.466002
Target:  5'- gCCUUCACCGUGgAGACG-CAGcugUCCGu -3'
miRNA:   3'- -GGAGGUGGCACaUCUGCuGUCa--GGGC- -5'
18258 3' -55.3 NC_004681.1 + 2945 0.75 0.358724
Target:  5'- gCCUCgGggacggugaCCGUGUAG-CGGCGGUCCCc -3'
miRNA:   3'- -GGAGgU---------GGCACAUCuGCUGUCAGGGc -5'
18258 3' -55.3 NC_004681.1 + 27196 0.78 0.226852
Target:  5'- gCCUCCACCGgGUgcgAGugGACGGUgCCa -3'
miRNA:   3'- -GGAGGUGGCaCA---UCugCUGUCAgGGc -5'
18258 3' -55.3 NC_004681.1 + 7652 1.11 0.001333
Target:  5'- uCCUCCACCGUGUAGACGACAGUCCCGg -3'
miRNA:   3'- -GGAGGUGGCACAUCUGCUGUCAGGGC- -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.