miRNA display CGI


Results 1 - 20 of 56 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
28145 3' -50.5 NC_005887.1 + 935 0.66 0.910536
Target:  5'- --aUCGCGAGUGCcccgAGUGCUuCGGCGAa -3'
miRNA:   3'- gcaAGCGCUUGCG----UCAUGGuGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 1896 0.66 0.910536
Target:  5'- gCGUUCGUGucgccgaaGAUGCcGUACCAgguCGGCGGc -3'
miRNA:   3'- -GCAAGCGC--------UUGCGuCAUGGU---GUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 3006 0.7 0.714364
Target:  5'- --gUCGCG---GCGGUGCCGCGGCGc -3'
miRNA:   3'- gcaAGCGCuugCGUCAUGGUGUUGCu -5'
28145 3' -50.5 NC_005887.1 + 3326 0.66 0.888984
Target:  5'- --aUCGCGGcgACGaAGUugCGCAGCGc -3'
miRNA:   3'- gcaAGCGCU--UGCgUCAugGUGUUGCu -5'
28145 3' -50.5 NC_005887.1 + 4030 0.67 0.847466
Target:  5'- uCGUUCGCGAGCaacgGCGGgu---CGACGAg -3'
miRNA:   3'- -GCAAGCGCUUG----CGUCaugguGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 4741 0.69 0.767807
Target:  5'- ---cCGCGAGCaauaccgGCGGUGCUuuuGCGACGAg -3'
miRNA:   3'- gcaaGCGCUUG-------CGUCAUGG---UGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 4803 0.66 0.888984
Target:  5'- cCGUgcUCGCGGaucucGCGCAGUucuGCCGCGcCa- -3'
miRNA:   3'- -GCA--AGCGCU-----UGCGUCA---UGGUGUuGcu -5'
28145 3' -50.5 NC_005887.1 + 5397 0.66 0.888221
Target:  5'- ---gCGCGAccggugaaccggcGgGCGGcGCCGCAGCGAc -3'
miRNA:   3'- gcaaGCGCU-------------UgCGUCaUGGUGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 7472 0.68 0.809785
Target:  5'- cCGUUCGCGAACG-AGcGCUACcuGCGc -3'
miRNA:   3'- -GCAAGCGCUUGCgUCaUGGUGu-UGCu -5'
28145 3' -50.5 NC_005887.1 + 7526 0.74 0.4996
Target:  5'- uCGUUCGCGAACGgCAugccgAUCACGACGc -3'
miRNA:   3'- -GCAAGCGCUUGC-GUca---UGGUGUUGCu -5'
28145 3' -50.5 NC_005887.1 + 8683 0.66 0.910536
Target:  5'- --aUCGCGAcggUGCAGgGCC-CGGCGAu -3'
miRNA:   3'- gcaAGCGCUu--GCGUCaUGGuGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 8784 0.67 0.864872
Target:  5'- uCGUggcCGCGAcgaaGCGCuuaccGCCGCGGCGGa -3'
miRNA:   3'- -GCAa--GCGCU----UGCGuca--UGGUGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 8926 0.71 0.623214
Target:  5'- aCGUUCGCGAuccgcgcgACGCAGagcGCCGacACGAu -3'
miRNA:   3'- -GCAAGCGCU--------UGCGUCa--UGGUguUGCU- -5'
28145 3' -50.5 NC_005887.1 + 8949 0.72 0.588852
Target:  5'- gGUcCGCGAGCGC-GUACgGCGucGCGAu -3'
miRNA:   3'- gCAaGCGCUUGCGuCAUGgUGU--UGCU- -5'
28145 3' -50.5 NC_005887.1 + 10353 0.66 0.903645
Target:  5'- ---aCGUGGACGcCGGUAUCACGuacaACGGc -3'
miRNA:   3'- gcaaGCGCUUGC-GUCAUGGUGU----UGCU- -5'
28145 3' -50.5 NC_005887.1 + 10616 0.66 0.888984
Target:  5'- --aUCGCGAcacgcuucuCGCGGaGCCugGGCGGc -3'
miRNA:   3'- gcaAGCGCUu--------GCGUCaUGGugUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 10706 0.73 0.53249
Target:  5'- uCGaaCGCGAuggaccGCGCGGUGCCGCuguuCGAu -3'
miRNA:   3'- -GCaaGCGCU------UGCGUCAUGGUGuu--GCU- -5'
28145 3' -50.5 NC_005887.1 + 11317 0.69 0.73652
Target:  5'- uCGgcaGCGAGCGCcgcaACCGCGACGGc -3'
miRNA:   3'- -GCaagCGCUUGCGuca-UGGUGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 11789 0.71 0.6347
Target:  5'- -aUUCGUGcGCGCcGUGCgCGCGGCGAa -3'
miRNA:   3'- gcAAGCGCuUGCGuCAUG-GUGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 12928 0.76 0.369578
Target:  5'- -uUUCGCGAGCGCGucccUGCCGCAGCa- -3'
miRNA:   3'- gcAAGCGCUUGCGUc---AUGGUGUUGcu -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.