miRNA display CGI


Results 1 - 20 of 32 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
27414 3' -58.3 NC_005869.1 + 16677 0.66 0.471478
Target:  5'- gCUGGA-GCGGGCGGCGGccGCCg-- -3'
miRNA:   3'- gGACCUgCGCCUGCUGCUccUGGaga -5'
27414 3' -58.3 NC_005869.1 + 22350 0.66 0.461466
Target:  5'- aCCUGGuggaggGCGUGGACaACGAGcGGCUcuUCg -3'
miRNA:   3'- -GGACC------UGCGCCUGcUGCUC-CUGG--AGa -5'
27414 3' -58.3 NC_005869.1 + 19142 0.66 0.451568
Target:  5'- -gUGGACucugGCGGGCGcAgGAGGAUCUg- -3'
miRNA:   3'- ggACCUG----CGCCUGC-UgCUCCUGGAga -5'
27414 3' -58.3 NC_005869.1 + 12784 0.66 0.451568
Target:  5'- aCCUGGAgcccagcuucuaCGCGG-CGcACcGGGACUUCa -3'
miRNA:   3'- -GGACCU------------GCGCCuGC-UGcUCCUGGAGa -5'
27414 3' -58.3 NC_005869.1 + 6794 0.66 0.450584
Target:  5'- uUUGGACG-GGGCGugGcgucucggugauaAGGGCCUg- -3'
miRNA:   3'- gGACCUGCgCCUGCugC-------------UCCUGGAga -5'
27414 3' -58.3 NC_005869.1 + 16628 0.66 0.441786
Target:  5'- aCCgGGGCGCGcGGgGugGGGGGCa--- -3'
miRNA:   3'- -GGaCCUGCGC-CUgCugCUCCUGgaga -5'
27414 3' -58.3 NC_005869.1 + 8219 0.66 0.432127
Target:  5'- --gGGAgGCgGGGCGGCG-GGcCCUCg -3'
miRNA:   3'- ggaCCUgCG-CCUGCUGCuCCuGGAGa -5'
27414 3' -58.3 NC_005869.1 + 8465 0.66 0.432127
Target:  5'- cCCUGGAgGCGGAgggUGGCGcGG-CgCUCg -3'
miRNA:   3'- -GGACCUgCGCCU---GCUGCuCCuG-GAGa -5'
27414 3' -58.3 NC_005869.1 + 25702 0.67 0.413183
Target:  5'- aCUGcGAccuCGCcgaGGAcaccucCGGCGAGGGCCUCUu -3'
miRNA:   3'- gGAC-CU---GCG---CCU------GCUGCUCCUGGAGA- -5'
27414 3' -58.3 NC_005869.1 + 17296 0.67 0.403905
Target:  5'- aCCUcGGGCGCGG-CGACa---GCCUCUg -3'
miRNA:   3'- -GGA-CCUGCGCCuGCUGcuccUGGAGA- -5'
27414 3' -58.3 NC_005869.1 + 25193 0.67 0.384857
Target:  5'- aCCUGGccgccaccguggaGCGCGccGGCcACGGGGACCUg- -3'
miRNA:   3'- -GGACC-------------UGCGC--CUGcUGCUCCUGGAga -5'
27414 3' -58.3 NC_005869.1 + 20938 0.67 0.376877
Target:  5'- cCCgGGACG-GGACGcGCGAGaGGCCg-- -3'
miRNA:   3'- -GGaCCUGCgCCUGC-UGCUC-CUGGaga -5'
27414 3' -58.3 NC_005869.1 + 8294 0.67 0.376877
Target:  5'- aCCUGGACGaaggugggccCGG-CGGCGcGGGCCa-- -3'
miRNA:   3'- -GGACCUGC----------GCCuGCUGCuCCUGGaga -5'
27414 3' -58.3 NC_005869.1 + 9423 0.68 0.368142
Target:  5'- gUUGG-CGCGGcaGCuGACGGGGAUCUUUu -3'
miRNA:   3'- gGACCuGCGCC--UG-CUGCUCCUGGAGA- -5'
27414 3' -58.3 NC_005869.1 + 11640 0.68 0.368142
Target:  5'- uCCUGGuugGCGCGGAaGAUGGgcuGGACgUCg -3'
miRNA:   3'- -GGACC---UGCGCCUgCUGCU---CCUGgAGa -5'
27414 3' -58.3 NC_005869.1 + 11759 0.68 0.359548
Target:  5'- cCCUGGcgcccgaGCGGGCGACGcGGAugcaggcgcugcCCUCc -3'
miRNA:   3'- -GGACCug-----CGCCUGCUGCuCCU------------GGAGa -5'
27414 3' -58.3 NC_005869.1 + 11725 0.68 0.359548
Target:  5'- gCUGGG-GCGGcgGCGGCGGGGgugagcgcgGCCUCc -3'
miRNA:   3'- gGACCUgCGCC--UGCUGCUCC---------UGGAGa -5'
27414 3' -58.3 NC_005869.1 + 12972 0.68 0.351094
Target:  5'- cCCgGGACGCcuuugacaGCGACGAGGagggccGCCUCa -3'
miRNA:   3'- -GGaCCUGCGcc------UGCUGCUCC------UGGAGa -5'
27414 3' -58.3 NC_005869.1 + 15477 0.68 0.351094
Target:  5'- uCCUGGGCggcgGCGGGCGcuugGCG-GGACgUCc -3'
miRNA:   3'- -GGACCUG----CGCCUGC----UGCuCCUGgAGa -5'
27414 3' -58.3 NC_005869.1 + 7907 0.68 0.327385
Target:  5'- -aUGGugGgCGGugGACGGGGcggcgguguugagcuCCUCUc -3'
miRNA:   3'- ggACCugC-GCCugCUGCUCCu--------------GGAGA- -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.