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
11470 3' -52.5 NC_003085.1 + 33248 0.66 0.809988
Target:  5'- gCCGCGAUgaggaGCACGGCGAGGa--- -3'
miRNA:   3'- -GGCGUUGagca-CGUGUUGCUCCaguu -5'
11470 3' -52.5 NC_003085.1 + 27722 0.66 0.809988
Target:  5'- gUCGCGcCUCGuUGCugG-CGAGGUgGAc -3'
miRNA:   3'- -GGCGUuGAGC-ACGugUuGCUCCAgUU- -5'
11470 3' -52.5 NC_003085.1 + 3815 0.66 0.800154
Target:  5'- uUCGCGAUgUUGUGCACGGCGAGc---- -3'
miRNA:   3'- -GGCGUUG-AGCACGUGUUGCUCcaguu -5'
11470 3' -52.5 NC_003085.1 + 19422 0.67 0.794164
Target:  5'- gCUGCAACUUGUGCugGcccuggaagccgcggACGAcGUCGc -3'
miRNA:   3'- -GGCGUUGAGCACGugU---------------UGCUcCAGUu -5'
11470 3' -52.5 NC_003085.1 + 18335 0.67 0.790134
Target:  5'- aCGCAcgaACUCG-GCGCGcugcuCGGGGUUGAg -3'
miRNA:   3'- gGCGU---UGAGCaCGUGUu----GCUCCAGUU- -5'
11470 3' -52.5 NC_003085.1 + 3708 0.67 0.790134
Target:  5'- aCGCAGCgcgaCGUGC-CAcGCGAGGcgUCAGc -3'
miRNA:   3'- gGCGUUGa---GCACGuGU-UGCUCC--AGUU- -5'
11470 3' -52.5 NC_003085.1 + 10023 0.67 0.759069
Target:  5'- gCCGCccGAgUCcuuUGCGCcauGCGAGGUCGAg -3'
miRNA:   3'- -GGCG--UUgAGc--ACGUGu--UGCUCCAGUU- -5'
11470 3' -52.5 NC_003085.1 + 28137 0.67 0.759069
Target:  5'- -gGUGAUgcgCGUGCugA-CGAGGUCGAu -3'
miRNA:   3'- ggCGUUGa--GCACGugUuGCUCCAGUU- -5'
11470 3' -52.5 NC_003085.1 + 9397 0.68 0.726762
Target:  5'- -aGCGaaACUCGUGC-CAuCGGGGUUGAa -3'
miRNA:   3'- ggCGU--UGAGCACGuGUuGCUCCAGUU- -5'
11470 3' -52.5 NC_003085.1 + 28514 0.68 0.726762
Target:  5'- aCCGCAcCUCGUGCcagACGcgcGCGGGGcUCc- -3'
miRNA:   3'- -GGCGUuGAGCACG---UGU---UGCUCC-AGuu -5'
11470 3' -52.5 NC_003085.1 + 35829 0.68 0.704701
Target:  5'- gCCGCAgaaGCUcCG-GCGCcaggcgcucguaGACGAGGUCGu -3'
miRNA:   3'- -GGCGU---UGA-GCaCGUG------------UUGCUCCAGUu -5'
11470 3' -52.5 NC_003085.1 + 22505 0.68 0.693551
Target:  5'- gCCG-AGCUCG-GaCGCGAUGAGGUUGAa -3'
miRNA:   3'- -GGCgUUGAGCaC-GUGUUGCUCCAGUU- -5'
11470 3' -52.5 NC_003085.1 + 8759 0.69 0.659771
Target:  5'- -aGCGGCUCGU-CACuAACGAGG-CGAa -3'
miRNA:   3'- ggCGUUGAGCAcGUG-UUGCUCCaGUU- -5'
11470 3' -52.5 NC_003085.1 + 23275 0.7 0.588386
Target:  5'- gCGCAGCUCGUcGCGCAaaucguccacggcuAUGGGGUg-- -3'
miRNA:   3'- gGCGUUGAGCA-CGUGU--------------UGCUCCAguu -5'
11470 3' -52.5 NC_003085.1 + 2636 0.7 0.569283
Target:  5'- gUCGCAACUCG-GCG--GCGAGGUgAu -3'
miRNA:   3'- -GGCGUUGAGCaCGUguUGCUCCAgUu -5'
11470 3' -52.5 NC_003085.1 + 48818 0.72 0.503389
Target:  5'- gCGguGCUCGaGCGCcucGACGAGGUCc- -3'
miRNA:   3'- gGCguUGAGCaCGUG---UUGCUCCAGuu -5'
11470 3' -52.5 NC_003085.1 + 14477 0.72 0.492714
Target:  5'- gCCaGCAg--CGUGCGC-ACGAGGUCAu -3'
miRNA:   3'- -GG-CGUugaGCACGUGuUGCUCCAGUu -5'
11470 3' -52.5 NC_003085.1 + 31891 0.73 0.441025
Target:  5'- uCCGCGAUgcCGUGCGgAACGAGG-CGGa -3'
miRNA:   3'- -GGCGUUGa-GCACGUgUUGCUCCaGUU- -5'
11470 3' -52.5 NC_003085.1 + 3639 0.73 0.412491
Target:  5'- aCCGUcgauGCUCGguggcagacggagugGCACGACGAGGUUGAc -3'
miRNA:   3'- -GGCGu---UGAGCa--------------CGUGUUGCUCCAGUU- -5'
11470 3' -52.5 NC_003085.1 + 20680 1.08 0.00187
Target:  5'- gCCGCAACUCGUGCACAACGAGGUCAAu -3'
miRNA:   3'- -GGCGUUGAGCACGUGUUGCUCCAGUU- -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.