miRNA display CGI


Results 1 - 20 of 46 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
26872 3' -57.9 NC_005809.1 + 2001 0.68 0.385989
Target:  5'- cUGAuCUugAGGCCCAGGCG-CU-CGCUGg -3'
miRNA:   3'- -ACUuGG--UCUGGGUCCGCuGGuGCGAC- -5'
26872 3' -57.9 NC_005809.1 + 2569 0.66 0.472422
Target:  5'- -cGACaCGG-CCCAGcGCGugCGCGCg- -3'
miRNA:   3'- acUUG-GUCuGGGUC-CGCugGUGCGac -5'
26872 3' -57.9 NC_005809.1 + 2659 0.68 0.368245
Target:  5'- aGGGCCAGcggucGCCCAGGUGuucgaucaGCCACGg-- -3'
miRNA:   3'- aCUUGGUC-----UGGGUCCGC--------UGGUGCgac -5'
26872 3' -57.9 NC_005809.1 + 2725 0.66 0.503352
Target:  5'- -uGGCCGGACgCUugAGcGCGGCCcgGCGCUGc -3'
miRNA:   3'- acUUGGUCUG-GG--UC-CGCUGG--UGCGAC- -5'
26872 3' -57.9 NC_005809.1 + 2821 0.69 0.33447
Target:  5'- cGGGCCAGGUgCucGCGGCCACGCg- -3'
miRNA:   3'- aCUUGGUCUGgGucCGCUGGUGCGac -5'
26872 3' -57.9 NC_005809.1 + 3862 0.66 0.462326
Target:  5'- uUGuACCAGGCgCCGucgcuGuaGGCCGCGCUGc -3'
miRNA:   3'- -ACuUGGUCUG-GGU-----CcgCUGGUGCGAC- -5'
26872 3' -57.9 NC_005809.1 + 5133 0.67 0.423126
Target:  5'- uUGAACUgcaacGugCCgcgcAGGCGGCCGuCGCUGc -3'
miRNA:   3'- -ACUUGGu----CugGG----UCCGCUGGU-GCGAC- -5'
26872 3' -57.9 NC_005809.1 + 7168 0.66 0.482628
Target:  5'- aGGGCCGGGCgcuugucggauUCGGG-GGCgACGCUGg -3'
miRNA:   3'- aCUUGGUCUG-----------GGUCCgCUGgUGCGAC- -5'
26872 3' -57.9 NC_005809.1 + 7691 0.66 0.49294
Target:  5'- cGGGCUuGACCUcGGCGGCCG-GCUu -3'
miRNA:   3'- aCUUGGuCUGGGuCCGCUGGUgCGAc -5'
26872 3' -57.9 NC_005809.1 + 8261 0.67 0.431773
Target:  5'- gGAAUCA--UCCGGGCauucggcuuccagGGCCACGCUGc -3'
miRNA:   3'- aCUUGGUcuGGGUCCG-------------CUGGUGCGAC- -5'
26872 3' -57.9 NC_005809.1 + 8521 0.66 0.462326
Target:  5'- gUGGGCCGuGGCgUAGGCGAUgaaACGCUc -3'
miRNA:   3'- -ACUUGGU-CUGgGUCCGCUGg--UGCGAc -5'
26872 3' -57.9 NC_005809.1 + 8533 0.7 0.295518
Target:  5'- cGAACUu-GCCCAGGUaucgcaGGCCGCGCUc -3'
miRNA:   3'- aCUUGGucUGGGUCCG------CUGGUGCGAc -5'
26872 3' -57.9 NC_005809.1 + 8685 0.67 0.452344
Target:  5'- cUGcGCC--GCCCAGGUGugcGCCGCGCa- -3'
miRNA:   3'- -ACuUGGucUGGGUCCGC---UGGUGCGac -5'
26872 3' -57.9 NC_005809.1 + 10210 0.66 0.503352
Target:  5'- -cGGCCGGGgCCucggcGGCGACCGCaGCg- -3'
miRNA:   3'- acUUGGUCUgGGu----CCGCUGGUG-CGac -5'
26872 3' -57.9 NC_005809.1 + 10990 0.73 0.179427
Target:  5'- aGAAgCAGGCCCAGGCGAgCA-GCc- -3'
miRNA:   3'- aCUUgGUCUGGGUCCGCUgGUgCGac -5'
26872 3' -57.9 NC_005809.1 + 13489 0.67 0.404289
Target:  5'- cGGGCCuGACCUcGGCGcccgaggaugACC-CGCUGa -3'
miRNA:   3'- aCUUGGuCUGGGuCCGC----------UGGuGCGAC- -5'
26872 3' -57.9 NC_005809.1 + 16581 0.68 0.377047
Target:  5'- cGAcgcGCCGGA-CgAGGcCGACCACGCg- -3'
miRNA:   3'- aCU---UGGUCUgGgUCC-GCUGGUGCGac -5'
26872 3' -57.9 NC_005809.1 + 16792 0.68 0.363032
Target:  5'- aUGGucGCCAGuugccaguuggucgcGCCCAGGCGGCgcaguuCACGCg- -3'
miRNA:   3'- -ACU--UGGUC---------------UGGGUCCGCUG------GUGCGac -5'
26872 3' -57.9 NC_005809.1 + 17104 0.66 0.462326
Target:  5'- -cGGCCGGGCCUugGGGCuuGACCACGa-- -3'
miRNA:   3'- acUUGGUCUGGG--UCCG--CUGGUGCgac -5'
26872 3' -57.9 NC_005809.1 + 17485 0.68 0.359586
Target:  5'- ---cCCAcGGCgCCGGGCGcGCUGCGCUGg -3'
miRNA:   3'- acuuGGU-CUG-GGUCCGC-UGGUGCGAC- -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.