miRNA display CGI


Results 1 - 14 of 14 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
13298 5' -59.9 NC_003409.1 + 127325 0.66 0.685946
Target:  5'- aGAcCAGAUuucccgaGGAuGGCGCCCCC-GGGAa -3'
miRNA:   3'- aCUcGUCUG-------CCU-CUGUGGGGGaCCCU- -5'
13298 5' -59.9 NC_003409.1 + 48721 0.67 0.676982
Target:  5'- gGGGUAGGCGaGGGCACgCUCC-GGGGc -3'
miRNA:   3'- aCUCGUCUGCcUCUGUG-GGGGaCCCU- -5'
13298 5' -59.9 NC_003409.1 + 35380 0.67 0.666988
Target:  5'- gGGGCGcGGCGGAGAaaagGCCUCUgugacuagGGGAg -3'
miRNA:   3'- aCUCGU-CUGCCUCUg---UGGGGGa-------CCCU- -5'
13298 5' -59.9 NC_003409.1 + 116191 0.67 0.663984
Target:  5'- cUGGGCAGGCGGAauaguacguccucuGACACCaCCUUagcauugaGGGc -3'
miRNA:   3'- -ACUCGUCUGCCU--------------CUGUGG-GGGA--------CCCu -5'
13298 5' -59.9 NC_003409.1 + 57139 0.68 0.576742
Target:  5'- -cAGCGGACaGGAucuGAgucauCACCaCCCUGGGAa -3'
miRNA:   3'- acUCGUCUG-CCU---CU-----GUGG-GGGACCCU- -5'
13298 5' -59.9 NC_003409.1 + 93906 0.68 0.576742
Target:  5'- cGAGcCAGACaGGAGAgGCCCUUUaccaucuauaaGGGAa -3'
miRNA:   3'- aCUC-GUCUG-CCUCUgUGGGGGA-----------CCCU- -5'
13298 5' -59.9 NC_003409.1 + 52328 0.68 0.566815
Target:  5'- --cGguGGCGGGGGCACgggcuCUUCUGGGAa -3'
miRNA:   3'- acuCguCUGCCUCUGUG-----GGGGACCCU- -5'
13298 5' -59.9 NC_003409.1 + 107798 0.69 0.527606
Target:  5'- uUGcAGCAGgccACGGuGGGCACgCCCCUGGa- -3'
miRNA:   3'- -AC-UCGUC---UGCC-UCUGUG-GGGGACCcu -5'
13298 5' -59.9 NC_003409.1 + 33938 0.69 0.517956
Target:  5'- uUGAG-AGGCGccagcGAGGCGCgCUCCUGGGGg -3'
miRNA:   3'- -ACUCgUCUGC-----CUCUGUG-GGGGACCCU- -5'
13298 5' -59.9 NC_003409.1 + 12002 0.7 0.47086
Target:  5'- aGGGCcugcuggaGGACGuGGGucagguuUACCCCCUGGGGu -3'
miRNA:   3'- aCUCG--------UCUGC-CUCu------GUGGGGGACCCU- -5'
13298 5' -59.9 NC_003409.1 + 46266 0.7 0.452634
Target:  5'- aUGcAGCuGGCGGuccuGAUACgcguCCCCUGGGAa -3'
miRNA:   3'- -AC-UCGuCUGCCu---CUGUG----GGGGACCCU- -5'
13298 5' -59.9 NC_003409.1 + 12196 0.71 0.400393
Target:  5'- gGAGaGGACGGAGugGCCCCCa---- -3'
miRNA:   3'- aCUCgUCUGCCUCugUGGGGGacccu -5'
13298 5' -59.9 NC_003409.1 + 71984 0.74 0.281281
Target:  5'- gGAGCggAGACGGccGGACGCUCCCacaaaaUGGGAg -3'
miRNA:   3'- aCUCG--UCUGCC--UCUGUGGGGG------ACCCU- -5'
13298 5' -59.9 NC_003409.1 + 47701 0.96 0.008911
Target:  5'- gUGAGCAGACGGA-ACACCCCCUGGGAa -3'
miRNA:   3'- -ACUCGUCUGCCUcUGUGGGGGACCCU- -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.