miRNA display CGI


Results 1 - 20 of 35 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
16326 3' -51.3 NC_004084.1 + 19917 1.12 0.001895
Target:  5'- gAUUUCUCGAUCAGGCCGAUCUCGACCa -3'
miRNA:   3'- -UAAAGAGCUAGUCCGGCUAGAGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 5721 0.72 0.63287
Target:  5'- ----gUCGcUCGGGCCGAggucCUCGAUCg -3'
miRNA:   3'- uaaagAGCuAGUCCGGCUa---GAGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 13569 0.71 0.64412
Target:  5'- ---cCUgGAagucgCGGGCCGAUC-CGACCu -3'
miRNA:   3'- uaaaGAgCUa----GUCCGGCUAGaGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 47133 0.7 0.721911
Target:  5'- -gUUCUCGcccucacuguUCAGGUCGAgCUCGAaCCg -3'
miRNA:   3'- uaAAGAGCu---------AGUCCGGCUaGAGCU-GG- -5'
16326 3' -51.3 NC_004084.1 + 53646 0.7 0.729507
Target:  5'- --aUCagUGGUCAGGaaucggcguucgccCCGAUCUCGAUCa -3'
miRNA:   3'- uaaAGa-GCUAGUCC--------------GGCUAGAGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 17373 0.69 0.804968
Target:  5'- -cUUCUgGAUCGGGCCGuguagaugcCUCGGUCa -3'
miRNA:   3'- uaAAGAgCUAGUCCGGCua-------GAGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 1515 0.69 0.804968
Target:  5'- ---gCUCGAagccgaugcacUCGcGGUCGGUCUgGACCg -3'
miRNA:   3'- uaaaGAGCU-----------AGU-CCGGCUAGAgCUGG- -5'
16326 3' -51.3 NC_004084.1 + 29526 0.68 0.814622
Target:  5'- ---cCUCGAUCGcgcGGCCGGUgaCGcGCCg -3'
miRNA:   3'- uaaaGAGCUAGU---CCGGCUAgaGC-UGG- -5'
16326 3' -51.3 NC_004084.1 + 8621 0.68 0.824075
Target:  5'- ---cCUCGA---GGCCGAUCU-GGCCg -3'
miRNA:   3'- uaaaGAGCUaguCCGGCUAGAgCUGG- -5'
16326 3' -51.3 NC_004084.1 + 22417 0.68 0.824075
Target:  5'- -cUUCUCcAUU-GGCCGGUCUacgaGGCCa -3'
miRNA:   3'- uaAAGAGcUAGuCCGGCUAGAg---CUGG- -5'
16326 3' -51.3 NC_004084.1 + 30356 0.68 0.833318
Target:  5'- ---cCUCGAggAGGCCGAguaaGACCu -3'
miRNA:   3'- uaaaGAGCUagUCCGGCUagagCUGG- -5'
16326 3' -51.3 NC_004084.1 + 50257 0.68 0.833318
Target:  5'- ---gCUgGAgCGGGCUGGUCggcaCGACCa -3'
miRNA:   3'- uaaaGAgCUaGUCCGGCUAGa---GCUGG- -5'
16326 3' -51.3 NC_004084.1 + 35982 0.68 0.833318
Target:  5'- ---aCUCGAUCA-GCUcGUCUcCGACCg -3'
miRNA:   3'- uaaaGAGCUAGUcCGGcUAGA-GCUGG- -5'
16326 3' -51.3 NC_004084.1 + 52207 0.68 0.842339
Target:  5'- --aUCUCGAccucgUCGGGCaGAUCaUCGAUUg -3'
miRNA:   3'- uaaAGAGCU-----AGUCCGgCUAG-AGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 18099 0.67 0.867164
Target:  5'- --aUCUCGGacgUCAGGUCGAggUCggggauguccggcUCGGCCc -3'
miRNA:   3'- uaaAGAGCU---AGUCCGGCU--AG-------------AGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 13624 0.67 0.867983
Target:  5'- -----gUGGUCGGGaCCGucgugacuucccAUCUCGACCg -3'
miRNA:   3'- uaaagaGCUAGUCC-GGC------------UAGAGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 18268 0.67 0.875237
Target:  5'- -cUUCgaacCGGUCgacguugAGGCCGAUCaggccaccgUCGGCCu -3'
miRNA:   3'- uaAAGa---GCUAG-------UCCGGCUAG---------AGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 18422 0.67 0.87603
Target:  5'- --aUUUgGA-CGGGCuCGAUCUCGAUa -3'
miRNA:   3'- uaaAGAgCUaGUCCG-GCUAGAGCUGg -5'
16326 3' -51.3 NC_004084.1 + 58391 0.67 0.87603
Target:  5'- --aUCUCGGU--GGCCGAcacgacCUCGACUu -3'
miRNA:   3'- uaaAGAGCUAguCCGGCUa-----GAGCUGG- -5'
16326 3' -51.3 NC_004084.1 + 45808 0.67 0.87603
Target:  5'- --aUC-CGGUCAGGCCGGacaucguuccCUUGAUCg -3'
miRNA:   3'- uaaAGaGCUAGUCCGGCUa---------GAGCUGG- -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.