miRNA display CGI


Results 1 - 20 of 63 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
28085 3' -51.6 NC_005887.1 + 13305 0.66 0.853554
Target:  5'- gAUCGGCcaggcguUCGgcaa-CGCCGGCCGCa -3'
miRNA:   3'- gUAGUUGu------AGCacuagGUGGUCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 522 0.66 0.853554
Target:  5'- gGUCGaucugaacGCGUCGg---CCGCCGcgcGCCGCg -3'
miRNA:   3'- gUAGU--------UGUAGCacuaGGUGGU---CGGCG- -5'
28085 3' -51.6 NC_005887.1 + 16550 0.66 0.844632
Target:  5'- gCGUCAGCAacUCGUgcacgaagccGAUCUcgACCGGgcCCGCa -3'
miRNA:   3'- -GUAGUUGU--AGCA----------CUAGG--UGGUC--GGCG- -5'
28085 3' -51.6 NC_005887.1 + 19483 0.66 0.844632
Target:  5'- gGUCAACAagUGcUGAUCCcgauGCCGGCgaGCa -3'
miRNA:   3'- gUAGUUGUa-GC-ACUAGG----UGGUCGg-CG- -5'
28085 3' -51.6 NC_005887.1 + 19702 0.66 0.843726
Target:  5'- -uUCGAUAgCGUGAUCC-CCGuagggguGUCGCg -3'
miRNA:   3'- guAGUUGUaGCACUAGGuGGU-------CGGCG- -5'
28085 3' -51.6 NC_005887.1 + 28667 0.66 0.835466
Target:  5'- --cCGugGUCGaGAUcCCACCcGUCGCg -3'
miRNA:   3'- guaGUugUAGCaCUA-GGUGGuCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 4449 0.66 0.835466
Target:  5'- -cUCGGCAUCGUcucgcaguucGAcCCGgCuGCCGCg -3'
miRNA:   3'- guAGUUGUAGCA----------CUaGGUgGuCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 25428 0.66 0.826066
Target:  5'- gCAUCGcgccCGUCGUcuugccGAUCUGCuCGGCUGCa -3'
miRNA:   3'- -GUAGUu---GUAGCA------CUAGGUG-GUCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 9908 0.66 0.826066
Target:  5'- gGUCGGCGgcacgaucauguUCGUGcagaagGCCGGCCGCa -3'
miRNA:   3'- gUAGUUGU------------AGCACuagg--UGGUCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 24594 0.66 0.816444
Target:  5'- -uUCGAac-CGgGcgCCAUCAGCCGCg -3'
miRNA:   3'- guAGUUguaGCaCuaGGUGGUCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 36787 0.66 0.816444
Target:  5'- gGUCAGCGUCGgcGAUagaUugCAGCCa- -3'
miRNA:   3'- gUAGUUGUAGCa-CUAg--GugGUCGGcg -5'
28085 3' -51.6 NC_005887.1 + 24195 0.66 0.816444
Target:  5'- --aCAGCGUCGUGuugCCgacgugcguguuGCCaAGCCGUu -3'
miRNA:   3'- guaGUUGUAGCACua-GG------------UGG-UCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 7449 0.66 0.816444
Target:  5'- gCGUgcGCGUCGUGAUCgGCauGCCGUu -3'
miRNA:   3'- -GUAguUGUAGCACUAGgUGguCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 17688 0.66 0.816444
Target:  5'- aCGUCGGCAcgauguUCGUGA-CgGCCGGCUa- -3'
miRNA:   3'- -GUAGUUGU------AGCACUaGgUGGUCGGcg -5'
28085 3' -51.6 NC_005887.1 + 20715 0.67 0.806611
Target:  5'- gGUCGGCGUCG-GGUauucaccaacgCUACCGGCUGa -3'
miRNA:   3'- gUAGUUGUAGCaCUA-----------GGUGGUCGGCg -5'
28085 3' -51.6 NC_005887.1 + 12630 0.67 0.800614
Target:  5'- --gCGGCG-CGUGAUCCugCgacgcgacggcgaguGGCUGCg -3'
miRNA:   3'- guaGUUGUaGCACUAGGugG---------------UCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 17432 0.67 0.796577
Target:  5'- gAUCGACAaCGgugccGAUCCGgCuGCUGCg -3'
miRNA:   3'- gUAGUUGUaGCa----CUAGGUgGuCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 25007 0.67 0.796577
Target:  5'- gCGUCAGC-UCGcg--CCGgCGGCCGCc -3'
miRNA:   3'- -GUAGUUGuAGCacuaGGUgGUCGGCG- -5'
28085 3' -51.6 NC_005887.1 + 26093 0.67 0.787386
Target:  5'- gCAUCAGCucggcgacggugccCGUGcgCuCGCCGGCCGg -3'
miRNA:   3'- -GUAGUUGua------------GCACuaG-GUGGUCGGCg -5'
28085 3' -51.6 NC_005887.1 + 25641 0.67 0.786356
Target:  5'- gAUguGCAgguUGAgcuucaCCGCCAGCCGCa -3'
miRNA:   3'- gUAguUGUagcACUa-----GGUGGUCGGCG- -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.