miRNA display CGI


Results 1 - 13 of 13 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
11483 3' -58.2 NC_003085.1 + 28608 0.66 0.519829
Target:  5'- --gCCGGugguguGGCGCUCGcUGCUgcGGCCGGc -3'
miRNA:   3'- cagGGUCu-----CUGCGAGU-ACGA--CCGGCU- -5'
11483 3' -58.2 NC_003085.1 + 28370 0.66 0.478521
Target:  5'- uGUCCCAgGGGugGCag--GaCUGGCCGu -3'
miRNA:   3'- -CAGGGU-CUCugCGaguaC-GACCGGCu -5'
11483 3' -58.2 NC_003085.1 + 14724 0.67 0.458478
Target:  5'- -gCCCgacAGGGACG-UCGUGCUGGCg-- -3'
miRNA:   3'- caGGG---UCUCUGCgAGUACGACCGgcu -5'
11483 3' -58.2 NC_003085.1 + 41122 0.67 0.448626
Target:  5'- -gCCCAGGccgaGCGCggCAccccguacUGCUGGCCGGa -3'
miRNA:   3'- caGGGUCUc---UGCGa-GU--------ACGACCGGCU- -5'
11483 3' -58.2 NC_003085.1 + 14418 0.67 0.438892
Target:  5'- -cCUUGGAGAUGCUCcgcgaggGCUGGCCc- -3'
miRNA:   3'- caGGGUCUCUGCGAGua-----CGACCGGcu -5'
11483 3' -58.2 NC_003085.1 + 15114 0.67 0.429281
Target:  5'- -cUCCGGAGGucCGCaUCAacggcgggUGCUGGCUGAa -3'
miRNA:   3'- caGGGUCUCU--GCG-AGU--------ACGACCGGCU- -5'
11483 3' -58.2 NC_003085.1 + 10225 0.68 0.383153
Target:  5'- -gCCCAGAGugcguuguACGC-CGUaGcCUGGCCGAg -3'
miRNA:   3'- caGGGUCUC--------UGCGaGUA-C-GACCGGCU- -5'
11483 3' -58.2 NC_003085.1 + 2354 0.69 0.357103
Target:  5'- aUCCgGGAGGCGCa-GUGCgaGGCCGc -3'
miRNA:   3'- cAGGgUCUCUGCGagUACGa-CCGGCu -5'
11483 3' -58.2 NC_003085.1 + 5672 0.69 0.324346
Target:  5'- ---aCGGAcACGCUCAUgacGCUGGCCGGu -3'
miRNA:   3'- caggGUCUcUGCGAGUA---CGACCGGCU- -5'
11483 3' -58.2 NC_003085.1 + 41024 0.71 0.252436
Target:  5'- ---aCAGGGACgGCUgcUGCUGGCCGAg -3'
miRNA:   3'- caggGUCUCUG-CGAguACGACCGGCU- -5'
11483 3' -58.2 NC_003085.1 + 27789 0.73 0.198894
Target:  5'- cGUCCUGGAGGCGCUgAagccggaUGCUG-CCGAa -3'
miRNA:   3'- -CAGGGUCUCUGCGAgU-------ACGACcGGCU- -5'
11483 3' -58.2 NC_003085.1 + 615 0.73 0.184033
Target:  5'- cGUCCUGGGcGCGCUCGagGCUGGCgCGGa -3'
miRNA:   3'- -CAGGGUCUcUGCGAGUa-CGACCG-GCU- -5'
11483 3' -58.2 NC_003085.1 + 15004 1.08 0.000449
Target:  5'- cGUCCCAGAGACGCUCAUGCUGGCCGAc -3'
miRNA:   3'- -CAGGGUCUCUGCGAGUACGACCGGCU- -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.