miRNA display CGI


Results 1 - 20 of 20 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
28087 3' -58.5 NC_005887.1 + 15830 0.66 0.494037
Target:  5'- -aGGugcagCGcuUGCGCGGCG-CGAUCGa -3'
miRNA:   3'- gaCCua---GCucACGCGCCGCaGCUGGC- -5'
28087 3' -58.5 NC_005887.1 + 12064 0.66 0.483916
Target:  5'- aCUGcGAaCGucGUGCGCGGCacgaucGUCGcGCCGg -3'
miRNA:   3'- -GAC-CUaGCu-CACGCGCCG------CAGC-UGGC- -5'
28087 3' -58.5 NC_005887.1 + 29964 0.66 0.483916
Target:  5'- aCUGGuugacGUUGuuUGCGCGGUGcugcUCGGCCu -3'
miRNA:   3'- -GACC-----UAGCucACGCGCCGC----AGCUGGc -5'
28087 3' -58.5 NC_005887.1 + 11006 0.66 0.483916
Target:  5'- gUGGugcUCGGGUGCgGCGGUcugGUCGAgUGu -3'
miRNA:   3'- gACCu--AGCUCACG-CGCCG---CAGCUgGC- -5'
28087 3' -58.5 NC_005887.1 + 2402 0.66 0.473895
Target:  5'- -cGaGAUCGAGacacgcgaUGCGCGuCGUCGACgCGc -3'
miRNA:   3'- gaC-CUAGCUC--------ACGCGCcGCAGCUG-GC- -5'
28087 3' -58.5 NC_005887.1 + 22610 0.66 0.473895
Target:  5'- gUGGAUCGc-UGCGCG-CGUCG-CCu -3'
miRNA:   3'- gACCUAGCucACGCGCcGCAGCuGGc -5'
28087 3' -58.5 NC_005887.1 + 1580 0.67 0.46398
Target:  5'- cCUGGGccggUGGGUGgGUGGCGgccUCGaACCGc -3'
miRNA:   3'- -GACCUa---GCUCACgCGCCGC---AGC-UGGC- -5'
28087 3' -58.5 NC_005887.1 + 18530 0.67 0.46398
Target:  5'- uCUGGAcacgggcguucUCG-GUGgGCGGCGgCG-CCGg -3'
miRNA:   3'- -GACCU-----------AGCuCACgCGCCGCaGCuGGC- -5'
28087 3' -58.5 NC_005887.1 + 281 0.67 0.434906
Target:  5'- gUGGcgCGGGaacUGCGUGGCGU-GAUCa -3'
miRNA:   3'- gACCuaGCUC---ACGCGCCGCAgCUGGc -5'
28087 3' -58.5 NC_005887.1 + 42071 0.67 0.419838
Target:  5'- aCUGGAUCGAcgagcgcugucgcguGggGCGCGaugccGCGUCGACg- -3'
miRNA:   3'- -GACCUAGCU---------------Ca-CGCGC-----CGCAGCUGgc -5'
28087 3' -58.5 NC_005887.1 + 1404 0.67 0.41612
Target:  5'- -aGcGGUCGAGcaUGCGCucGGCGUUG-CCGa -3'
miRNA:   3'- gaC-CUAGCUC--ACGCG--CCGCAGCuGGC- -5'
28087 3' -58.5 NC_005887.1 + 34333 0.67 0.41612
Target:  5'- -aGGGUUuuGUGcCGUGGCGcCGGCCa -3'
miRNA:   3'- gaCCUAGcuCAC-GCGCCGCaGCUGGc -5'
28087 3' -58.5 NC_005887.1 + 33701 0.68 0.380081
Target:  5'- uUGGuuuuUCGuG-GCGCGGCGgUCGAUCu -3'
miRNA:   3'- gACCu---AGCuCaCGCGCCGC-AGCUGGc -5'
28087 3' -58.5 NC_005887.1 + 38637 0.68 0.380081
Target:  5'- -cGGAUCGcGGUcggcGCGCGGC-UCGACgGc -3'
miRNA:   3'- gaCCUAGC-UCA----CGCGCCGcAGCUGgC- -5'
28087 3' -58.5 NC_005887.1 + 29366 0.68 0.380081
Target:  5'- -cGGGUCG-GUGcCGCGG-GUCG-CCGc -3'
miRNA:   3'- gaCCUAGCuCAC-GCGCCgCAGCuGGC- -5'
28087 3' -58.5 NC_005887.1 + 17467 0.69 0.314522
Target:  5'- --aGAcCGAGcGCGCGGCaUCGGCCGc -3'
miRNA:   3'- gacCUaGCUCaCGCGCCGcAGCUGGC- -5'
28087 3' -58.5 NC_005887.1 + 10195 0.71 0.238894
Target:  5'- -cGGuuucGUCGAGUGCGUcGCGUCGAugcCCGc -3'
miRNA:   3'- gaCC----UAGCUCACGCGcCGCAGCU---GGC- -5'
28087 3' -58.5 NC_005887.1 + 16440 0.71 0.231633
Target:  5'- -gGGAUCGAgaaccgcGUGCGCGcgggcauGCGcUCGACCGc -3'
miRNA:   3'- gaCCUAGCU-------CACGCGC-------CGC-AGCUGGC- -5'
28087 3' -58.5 NC_005887.1 + 26965 0.72 0.226896
Target:  5'- -cGcGcgCGAucaGCGCGGCGUCGACCu -3'
miRNA:   3'- gaC-CuaGCUca-CGCGCCGCAGCUGGc -5'
28087 3' -58.5 NC_005887.1 + 6028 1.08 0.000509
Target:  5'- cCUGGAUCGAGUGCGCGGCGUCGACCGc -3'
miRNA:   3'- -GACCUAGCUCACGCGCCGCAGCUGGC- -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.