miRNA display CGI


Results 1 - 20 of 30 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
24838 3' -52.1 NC_005284.1 + 44890 0.66 0.889856
Target:  5'- cGAGCGACGCuucggcgcgcuGAgcuccugcugugcggCugCCGUcUCGCGAg -3'
miRNA:   3'- -CUCGCUGUG-----------CUa--------------GugGGUAaAGCGCU- -5'
24838 3' -52.1 NC_005284.1 + 27043 0.66 0.889113
Target:  5'- gGGGCGGCACGAUCGauuUCC--UUCuCGAc -3'
miRNA:   3'- -CUCGCUGUGCUAGU---GGGuaAAGcGCU- -5'
24838 3' -52.1 NC_005284.1 + 53567 0.66 0.881528
Target:  5'- uGAGCGGCugccgGCGcgCGCCCAUgccggUCaGCa- -3'
miRNA:   3'- -CUCGCUG-----UGCuaGUGGGUAa----AG-CGcu -5'
24838 3' -52.1 NC_005284.1 + 28881 0.66 0.881528
Target:  5'- aAGCGGCGCGcagCAUCaaagaacaGUUUUGCGAa -3'
miRNA:   3'- cUCGCUGUGCua-GUGGg-------UAAAGCGCU- -5'
24838 3' -52.1 NC_005284.1 + 19266 0.66 0.873677
Target:  5'- -cGCGACACGGgaaUCGCUCuucgacggcuucGUUUCGCu- -3'
miRNA:   3'- cuCGCUGUGCU---AGUGGG------------UAAAGCGcu -5'
24838 3' -52.1 NC_005284.1 + 44174 0.66 0.872877
Target:  5'- -cGcCGACACGAagcggucgaucagUCGCCCGaucucgCGCGAu -3'
miRNA:   3'- cuC-GCUGUGCU-------------AGUGGGUaaa---GCGCU- -5'
24838 3' -52.1 NC_005284.1 + 26423 0.66 0.865565
Target:  5'- uGGGCGACgACGaAUUGCUCAg--UGCGAa -3'
miRNA:   3'- -CUCGCUG-UGC-UAGUGGGUaaaGCGCU- -5'
24838 3' -52.1 NC_005284.1 + 8352 0.66 0.865565
Target:  5'- cGGCGACgGCGAUCGgUUcgUUCGCu- -3'
miRNA:   3'- cUCGCUG-UGCUAGUgGGuaAAGCGcu -5'
24838 3' -52.1 NC_005284.1 + 28018 0.66 0.8572
Target:  5'- cGGGCGACAUGGUUgcaGCgCCAgcacCGUGAu -3'
miRNA:   3'- -CUCGCUGUGCUAG---UG-GGUaaa-GCGCU- -5'
24838 3' -52.1 NC_005284.1 + 7660 0.66 0.8572
Target:  5'- uGGGCGGCGuCGGUCaauggGCUgAUUUCgGCGAc -3'
miRNA:   3'- -CUCGCUGU-GCUAG-----UGGgUAAAG-CGCU- -5'
24838 3' -52.1 NC_005284.1 + 15144 0.66 0.852062
Target:  5'- aAGCGAUcUGAUCGCUCAgggcaccgaagaucUUCGCGGa -3'
miRNA:   3'- cUCGCUGuGCUAGUGGGUa-------------AAGCGCU- -5'
24838 3' -52.1 NC_005284.1 + 43139 0.67 0.843309
Target:  5'- -cGCG-CGCGuuGUCACCCAUcgacaucgccccgagUUCGCGc -3'
miRNA:   3'- cuCGCuGUGC--UAGUGGGUA---------------AAGCGCu -5'
24838 3' -52.1 NC_005284.1 + 3313 0.67 0.839742
Target:  5'- aAGCG-CGCGAUCaccGCCCA--UCGCu- -3'
miRNA:   3'- cUCGCuGUGCUAG---UGGGUaaAGCGcu -5'
24838 3' -52.1 NC_005284.1 + 39556 0.67 0.839742
Target:  5'- aGAGCGACAaucUCGCCCAUgucUUCGg-- -3'
miRNA:   3'- -CUCGCUGUgcuAGUGGGUA---AAGCgcu -5'
24838 3' -52.1 NC_005284.1 + 20648 0.67 0.821375
Target:  5'- cGGCGGC-CGA-CAUCCcaaugucgcaacGUUUCGCGAa -3'
miRNA:   3'- cUCGCUGuGCUaGUGGG------------UAAAGCGCU- -5'
24838 3' -52.1 NC_005284.1 + 4391 0.67 0.811875
Target:  5'- cGAGUGGCACGG-CACaaCgGUUUCGuCGAg -3'
miRNA:   3'- -CUCGCUGUGCUaGUG--GgUAAAGC-GCU- -5'
24838 3' -52.1 NC_005284.1 + 37505 0.68 0.792297
Target:  5'- --uCGACACGGUCACCCAaucCGuUGAg -3'
miRNA:   3'- cucGCUGUGCUAGUGGGUaaaGC-GCU- -5'
24838 3' -52.1 NC_005284.1 + 47204 0.68 0.792297
Target:  5'- -cGUGACGCGGaacacauacuuuUCGCCCGUcgcacgCGCGGc -3'
miRNA:   3'- cuCGCUGUGCU------------AGUGGGUAaa----GCGCU- -5'
24838 3' -52.1 NC_005284.1 + 9611 0.68 0.772022
Target:  5'- cGAGCGucuuCACGAUCuccuGCCCGacgUCGCc- -3'
miRNA:   3'- -CUCGCu---GUGCUAG----UGGGUaa-AGCGcu -5'
24838 3' -52.1 NC_005284.1 + 9336 0.68 0.751147
Target:  5'- cGAGCaACugG-UCGCCCGacaaUCGCGAc -3'
miRNA:   3'- -CUCGcUGugCuAGUGGGUaa--AGCGCU- -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.