miRNA display CGI


Results 1 - 18 of 18 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
18395 3' -57.6 NC_004681.1 + 29478 0.66 0.703415
Target:  5'- ---gGCGCuGAUGuugCCAGACGaGGUGa -3'
miRNA:   3'- cgagCGCGuCUACug-GGUCUGC-CCAC- -5'
18395 3' -57.6 NC_004681.1 + 53347 0.66 0.69302
Target:  5'- cGCUCaCGCA--UGGcCCCAGACGaGUGg -3'
miRNA:   3'- -CGAGcGCGUcuACU-GGGUCUGCcCAC- -5'
18395 3' -57.6 NC_004681.1 + 39193 0.66 0.68257
Target:  5'- uGCcCGCGCAGGUGGCCaccagggcuugCAcGGCGcGGUc -3'
miRNA:   3'- -CGaGCGCGUCUACUGG-----------GU-CUGC-CCAc -5'
18395 3' -57.6 NC_004681.1 + 7344 0.66 0.68257
Target:  5'- gGC-CGCGUcguGGAUGGCCUGGagaaGCGcGGUGu -3'
miRNA:   3'- -CGaGCGCG---UCUACUGGGUC----UGC-CCAC- -5'
18395 3' -57.6 NC_004681.1 + 11053 0.66 0.672077
Target:  5'- gGCUCGUGU-GAUGGCCaCGGACuacaaguccuGGUGg -3'
miRNA:   3'- -CGAGCGCGuCUACUGG-GUCUGc---------CCAC- -5'
18395 3' -57.6 NC_004681.1 + 67168 0.66 0.672077
Target:  5'- uCUCGCGCAacuGGuUGACCCAGAgCGucagcguguuGGUGc -3'
miRNA:   3'- cGAGCGCGU---CU-ACUGGGUCU-GC----------CCAC- -5'
18395 3' -57.6 NC_004681.1 + 33248 0.67 0.650994
Target:  5'- -aUCGCGCAGGUGAU----GCGGGUc -3'
miRNA:   3'- cgAGCGCGUCUACUGggucUGCCCAc -5'
18395 3' -57.6 NC_004681.1 + 74034 0.68 0.55632
Target:  5'- uGCUCGCGCGGAUGcUCCguGGAgCGGa-- -3'
miRNA:   3'- -CGAGCGCGUCUACuGGG--UCU-GCCcac -5'
18395 3' -57.6 NC_004681.1 + 457 0.68 0.545982
Target:  5'- gGCUCGUccucGCGGAUGgcGCCCAuGAC-GGUGc -3'
miRNA:   3'- -CGAGCG----CGUCUAC--UGGGU-CUGcCCAC- -5'
18395 3' -57.6 NC_004681.1 + 27704 0.68 0.545982
Target:  5'- ---aGCGCcaccgaGGGUGACCCAGGCGccuguGGUGc -3'
miRNA:   3'- cgagCGCG------UCUACUGGGUCUGC-----CCAC- -5'
18395 3' -57.6 NC_004681.1 + 45038 0.69 0.525499
Target:  5'- aGCUCGCGguGgcGGCuCCAccgcGugGGGg- -3'
miRNA:   3'- -CGAGCGCguCuaCUG-GGU----CugCCCac -5'
18395 3' -57.6 NC_004681.1 + 4206 0.69 0.524483
Target:  5'- uGCUUGCGCauugccucccacgAGAggaagcGACCCAGcGCGGGg- -3'
miRNA:   3'- -CGAGCGCG-------------UCUa-----CUGGGUC-UGCCCac -5'
18395 3' -57.6 NC_004681.1 + 20024 0.7 0.437586
Target:  5'- -gUCGaacCGCGGA-GACCaGGACGGGUGg -3'
miRNA:   3'- cgAGC---GCGUCUaCUGGgUCUGCCCAC- -5'
18395 3' -57.6 NC_004681.1 + 5670 0.71 0.392528
Target:  5'- -gUUGCGCuuGAUggcGACCCGuGACGGGUGc -3'
miRNA:   3'- cgAGCGCGu-CUA---CUGGGU-CUGCCCAC- -5'
18395 3' -57.6 NC_004681.1 + 2759 0.73 0.283425
Target:  5'- cGCUCGgagaCGUAGGaGACCCGGGCuaGGGUGc -3'
miRNA:   3'- -CGAGC----GCGUCUaCUGGGUCUG--CCCAC- -5'
18395 3' -57.6 NC_004681.1 + 54440 0.74 0.269954
Target:  5'- aCUUGCGCAGGUacuuaGGCCaCAGGUGGGUGg -3'
miRNA:   3'- cGAGCGCGUCUA-----CUGG-GUCUGCCCAC- -5'
18395 3' -57.6 NC_004681.1 + 48498 0.77 0.162256
Target:  5'- aCUCGcCGCGGAgaACCCGGAgCGGGUGg -3'
miRNA:   3'- cGAGC-GCGUCUacUGGGUCU-GCCCAC- -5'
18395 3' -57.6 NC_004681.1 + 15058 1.09 0.000944
Target:  5'- uGCUCGCGCAGAUGACCCAGACGGGUGc -3'
miRNA:   3'- -CGAGCGCGUCUACUGGGUCUGCCCAC- -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.