miRNA display CGI


Results 1 - 20 of 34 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
28050 3' -53.8 NC_005887.1 + 42064 0.66 0.761448
Target:  5'- cUCGcCGACUGGAucgacgaGCGCUgucgcguggGGCGcGAUgCCg -3'
miRNA:   3'- -GGC-GCUGACCU-------UGCGA---------CCGUuCUA-GG- -5'
28050 3' -53.8 NC_005887.1 + 41491 0.67 0.672457
Target:  5'- cCCGCauggcaccGGCUcGAACggcaagucgacgguGCUcGGCAAGAUCCg -3'
miRNA:   3'- -GGCG--------CUGAcCUUG--------------CGA-CCGUUCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 37524 0.71 0.467997
Target:  5'- aCgGuCGACUGGuugGCGCggcagaacUGcGCGAGAUCCg -3'
miRNA:   3'- -GgC-GCUGACCu--UGCG--------AC-CGUUCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 29976 0.68 0.619826
Target:  5'- aCCGCcGC-GcGGAUGCUGuCGAGGUCCa -3'
miRNA:   3'- -GGCGcUGaC-CUUGCGACcGUUCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 29308 0.71 0.437825
Target:  5'- aCGCGGC---GACGCUGGCcguguGGAUCUg -3'
miRNA:   3'- gGCGCUGaccUUGCGACCGu----UCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 27864 0.69 0.564116
Target:  5'- aCCGCGGCgGGcACGauCUGcGCGAGGcCCg -3'
miRNA:   3'- -GGCGCUGaCCuUGC--GAC-CGUUCUaGG- -5'
28050 3' -53.8 NC_005887.1 + 26836 0.67 0.6758
Target:  5'- cUCGCGACguccGGAAa-CUGGCcGGcGUCCa -3'
miRNA:   3'- -GGCGCUGa---CCUUgcGACCGuUC-UAGG- -5'
28050 3' -53.8 NC_005887.1 + 26426 0.75 0.275092
Target:  5'- gCCGCG-CgGGAacgcGCGCUGcagccgcGCGAGAUCCg -3'
miRNA:   3'- -GGCGCuGaCCU----UGCGAC-------CGUUCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 26333 0.69 0.575178
Target:  5'- gCCGUGGCcGG--CGCUGGCcGGGUgCg -3'
miRNA:   3'- -GGCGCUGaCCuuGCGACCGuUCUAgG- -5'
28050 3' -53.8 NC_005887.1 + 26213 0.67 0.664646
Target:  5'- gCgGUGGCcGGccuGCaGCUGGCGcacGGGUCCg -3'
miRNA:   3'- -GgCGCUGaCCu--UG-CGACCGU---UCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 22604 0.67 0.697967
Target:  5'- gUGCGugUGGAuCGCUGcGCGcGucgCCu -3'
miRNA:   3'- gGCGCugACCUuGCGAC-CGUuCua-GG- -5'
28050 3' -53.8 NC_005887.1 + 18914 0.66 0.762491
Target:  5'- -aGCGGCgGGAugGCgGGCGGcugcgacgagcuGAUCg -3'
miRNA:   3'- ggCGCUGaCCUugCGaCCGUU------------CUAGg -5'
28050 3' -53.8 NC_005887.1 + 16833 0.68 0.597441
Target:  5'- cCCGCGA-UGGAGCGCgacaucauccGCGAGGUguaCCg -3'
miRNA:   3'- -GGCGCUgACCUUGCGac--------CGUUCUA---GG- -5'
28050 3' -53.8 NC_005887.1 + 16743 0.67 0.708957
Target:  5'- gUGCGA---GAGCGCUGGCGAaGUCa -3'
miRNA:   3'- gGCGCUgacCUUGCGACCGUUcUAGg -5'
28050 3' -53.8 NC_005887.1 + 16450 0.74 0.297846
Target:  5'- aCCGCGuGCgcgcGGGcauGCGCUcgaccgcgcGGCAGGAUCCg -3'
miRNA:   3'- -GGCGC-UGa---CCU---UGCGA---------CCGUUCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 16404 0.67 0.697967
Target:  5'- gCCGcCGGCcGGAagcucACGCaGGCcGAGAUCg -3'
miRNA:   3'- -GGC-GCUGaCCU-----UGCGaCCG-UUCUAGg -5'
28050 3' -53.8 NC_005887.1 + 16208 0.66 0.752013
Target:  5'- gCUGCGACcGGAcACGCaGGuCAcGAUCg -3'
miRNA:   3'- -GGCGCUGaCCU-UGCGaCC-GUuCUAGg -5'
28050 3' -53.8 NC_005887.1 + 15977 1.13 0.000623
Target:  5'- uCCGCGACUGGAACGCUGGCAAGAUCCc -3'
miRNA:   3'- -GGCGCUGACCUUGCGACCGUUCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 15391 0.68 0.653461
Target:  5'- gCCGCG-CUGaucGCGCgcgGGCAgcGGAUCg -3'
miRNA:   3'- -GGCGCuGACcu-UGCGa--CCGU--UCUAGg -5'
28050 3' -53.8 NC_005887.1 + 15028 0.66 0.76249
Target:  5'- cUCGCG-CUGaaGAAUGCgGGCGAGAagUCg -3'
miRNA:   3'- -GGCGCuGAC--CUUGCGaCCGUUCU--AGg -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.