miRNA display CGI


Results 1 - 20 of 139 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
19079 3' -57.2 NC_004684.1 + 521 0.71 0.352643
Target:  5'- aGCUGCuGCAAGGC-CUGGAcccggcgaaaGGCCUGg -3'
miRNA:   3'- aCGGUG-CGUUCUGuGACCU----------CCGGACg -5'
19079 3' -57.2 NC_004684.1 + 1176 0.67 0.563362
Target:  5'- gUGCCGagcCGC-AGGCGCUGGAcuacuacGGCaaGCg -3'
miRNA:   3'- -ACGGU---GCGuUCUGUGACCU-------CCGgaCG- -5'
19079 3' -57.2 NC_004684.1 + 1402 0.78 0.125351
Target:  5'- uUGCaCugGCcagcGAC-CUGGAGGCCUGCc -3'
miRNA:   3'- -ACG-GugCGuu--CUGuGACCUCCGGACG- -5'
19079 3' -57.2 NC_004684.1 + 1767 0.68 0.522295
Target:  5'- aGCUGCGCGcGugGCUGGAcGCCa-- -3'
miRNA:   3'- aCGGUGCGUuCugUGACCUcCGGacg -5'
19079 3' -57.2 NC_004684.1 + 2324 0.66 0.607401
Target:  5'- -aCCGCGCAGGACgaACUGGcGGCg-GUc -3'
miRNA:   3'- acGGUGCGUUCUG--UGACCuCCGgaCG- -5'
19079 3' -57.2 NC_004684.1 + 2668 0.66 0.629045
Target:  5'- gGCCACaagauGGACccgaUGGAGGCCcugGCg -3'
miRNA:   3'- aCGGUGcgu--UCUGug--ACCUCCGGa--CG- -5'
19079 3' -57.2 NC_004684.1 + 3263 0.71 0.352643
Target:  5'- gGCCugGCcGGACAUcgUGGAcGCaCUGCu -3'
miRNA:   3'- aCGGugCGuUCUGUG--ACCUcCG-GACG- -5'
19079 3' -57.2 NC_004684.1 + 3818 0.71 0.372069
Target:  5'- cGCCGCGCAggccgauGGAC-CUgauggcagcggccgaGGAGGCCgaGCg -3'
miRNA:   3'- aCGGUGCGU-------UCUGuGA---------------CCUCCGGa-CG- -5'
19079 3' -57.2 NC_004684.1 + 3894 0.79 0.10326
Target:  5'- cGCCcugcugGCGCAGGcGCAgCUGGAGGCCUcGCg -3'
miRNA:   3'- aCGG------UGCGUUC-UGU-GACCUCCGGA-CG- -5'
19079 3' -57.2 NC_004684.1 + 4055 0.68 0.529587
Target:  5'- gGUCACcgGgGAGACcaccucccgguucaACUGGAacGGCCUGCu -3'
miRNA:   3'- aCGGUG--CgUUCUG--------------UGACCU--CCGGACG- -5'
19079 3' -57.2 NC_004684.1 + 4422 0.7 0.413969
Target:  5'- cGCCggaacaacGCGCGGGccugcuggcGCAgCUGGAGGCC-GCa -3'
miRNA:   3'- aCGG--------UGCGUUC---------UGU-GACCUCCGGaCG- -5'
19079 3' -57.2 NC_004684.1 + 4518 0.66 0.60416
Target:  5'- gGCCgggauccuguuccgGgGCGAGACcCcGGAGGCCcGCu -3'
miRNA:   3'- aCGG--------------UgCGUUCUGuGaCCUCCGGaCG- -5'
19079 3' -57.2 NC_004684.1 + 5052 0.7 0.386888
Target:  5'- cUGgCGCGCGcuGUGCUGGAGGCCUccgGCg -3'
miRNA:   3'- -ACgGUGCGUucUGUGACCUCCGGA---CG- -5'
19079 3' -57.2 NC_004684.1 + 5096 0.74 0.225835
Target:  5'- gGCC-CGCGcGGCGCUGGAGcagcGCCUGg -3'
miRNA:   3'- aCGGuGCGUuCUGUGACCUC----CGGACg -5'
19079 3' -57.2 NC_004684.1 + 5160 0.67 0.575111
Target:  5'- aGCCGCGCuaccccgaugucGAGgugGCGCUGGuuGGCCaggacgGCa -3'
miRNA:   3'- aCGGUGCG------------UUC---UGUGACCu-CCGGa-----CG- -5'
19079 3' -57.2 NC_004684.1 + 5239 0.72 0.298033
Target:  5'- aGCCcuGCGCAaggccGGGCACgGcGAGGCgUGCa -3'
miRNA:   3'- aCGG--UGCGU-----UCUGUGaC-CUCCGgACG- -5'
19079 3' -57.2 NC_004684.1 + 5561 0.7 0.375521
Target:  5'- uUGCCcucACGguGGGCGCgcgcgaaaucgccaUGGAGGCCUucGCc -3'
miRNA:   3'- -ACGG---UGCguUCUGUG--------------ACCUCCGGA--CG- -5'
19079 3' -57.2 NC_004684.1 + 5672 0.66 0.650699
Target:  5'- aGCCGugguCGgAGGugGCcgGGGcccGGCCUGCc -3'
miRNA:   3'- aCGGU----GCgUUCugUGa-CCU---CCGGACG- -5'
19079 3' -57.2 NC_004684.1 + 6479 0.68 0.499639
Target:  5'- gUGCgACGCcguggccGAGAUggucgaugaACUGGAGGCCgaggaggUGCg -3'
miRNA:   3'- -ACGgUGCG-------UUCUG---------UGACCUCCGG-------ACG- -5'
19079 3' -57.2 NC_004684.1 + 6596 0.66 0.607401
Target:  5'- cGCCACGCAccgAGGCGaguucCUGGucGCCa-- -3'
miRNA:   3'- aCGGUGCGU---UCUGU-----GACCucCGGacg -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.