miRNA display CGI


Results 1 - 20 of 25 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
11857 5' -64.4 NC_003266.2 + 10160 1.08 0.00009
Target:  5'- cGCCCCCGCCACCGAGCGAUGGCCGCUc -3'
miRNA:   3'- -CGGGGGCGGUGGCUCGCUACCGGCGA- -5'
11857 5' -64.4 NC_003266.2 + 17996 0.81 0.014847
Target:  5'- aGCCCCUGCCGCCGguGGCcGUGGcCCGCg -3'
miRNA:   3'- -CGGGGGCGGUGGC--UCGcUACC-GGCGa -5'
11857 5' -64.4 NC_003266.2 + 15956 0.75 0.041562
Target:  5'- uCCCUCGCCG-CGGGCGGgacaugcuggcuaUGGCCGCUg -3'
miRNA:   3'- cGGGGGCGGUgGCUCGCU-------------ACCGGCGA- -5'
11857 5' -64.4 NC_003266.2 + 15779 0.74 0.046695
Target:  5'- uGCUacggUGCCGCCGGGCGAUGcGCCGCc -3'
miRNA:   3'- -CGGgg--GCGGUGGCUCGCUAC-CGGCGa -5'
11857 5' -64.4 NC_003266.2 + 8728 0.74 0.049279
Target:  5'- gGUCUCCGCgGCCGGcGCGcuccacgGUGGCCGCg -3'
miRNA:   3'- -CGGGGGCGgUGGCU-CGC-------UACCGGCGa -5'
11857 5' -64.4 NC_003266.2 + 17237 0.72 0.079698
Target:  5'- gGCgCgCCGCCGCCGguGGgGGUGGCgGCg -3'
miRNA:   3'- -CGgG-GGCGGUGGC--UCgCUACCGgCGa -5'
11857 5' -64.4 NC_003266.2 + 16483 0.71 0.09414
Target:  5'- aCCCUgcagcaggUGCUGCCGAGCGcgGcGCCGCg -3'
miRNA:   3'- cGGGG--------GCGGUGGCUCGCuaC-CGGCGa -5'
11857 5' -64.4 NC_003266.2 + 11132 0.71 0.09414
Target:  5'- aGCUCCCGCC-CCGcGUGGaaacgGGCUGCg -3'
miRNA:   3'- -CGGGGGCGGuGGCuCGCUa----CCGGCGa -5'
11857 5' -64.4 NC_003266.2 + 10871 0.7 0.111037
Target:  5'- cGCCgCgGCCGCCguGAGCGG-GGCCGg- -3'
miRNA:   3'- -CGGgGgCGGUGG--CUCGCUaCCGGCga -5'
11857 5' -64.4 NC_003266.2 + 10406 0.7 0.114116
Target:  5'- aGCCUCCagGCCACgGAGuCGA--GCCGCUg -3'
miRNA:   3'- -CGGGGG--CGGUGgCUC-GCUacCGGCGA- -5'
11857 5' -64.4 NC_003266.2 + 17176 0.69 0.117275
Target:  5'- cGCCaCCC-CCACCG-GCGgcGGCgCGCc -3'
miRNA:   3'- -CGG-GGGcGGUGGCuCGCuaCCG-GCGa -5'
11857 5' -64.4 NC_003266.2 + 17798 0.69 0.134325
Target:  5'- cGUCCCCGUC-CCGAcGCGGaGGagaCGCUg -3'
miRNA:   3'- -CGGGGGCGGuGGCU-CGCUaCCg--GCGA- -5'
11857 5' -64.4 NC_003266.2 + 26882 0.68 0.15363
Target:  5'- uGCCgaUGCCGCcCGAGCGA-GGuuGCg -3'
miRNA:   3'- -CGGggGCGGUG-GCUCGCUaCCggCGa -5'
11857 5' -64.4 NC_003266.2 + 12026 0.68 0.162035
Target:  5'- cGCCgCCCGCaUugCGGGaucaggaGGUGGCUGUUg -3'
miRNA:   3'- -CGG-GGGCG-GugGCUCg------CUACCGGCGA- -5'
11857 5' -64.4 NC_003266.2 + 11838 0.67 0.184879
Target:  5'- aGCCCa-GCCGCCGGGUcuUGgaaGCCGCg -3'
miRNA:   3'- -CGGGggCGGUGGCUCGcuAC---CGGCGa -5'
11857 5' -64.4 NC_003266.2 + 11424 0.67 0.189776
Target:  5'- cGCUgCUGaauauCACCGAGCccGAgGGCCGCUg -3'
miRNA:   3'- -CGGgGGCg----GUGGCUCG--CUaCCGGCGA- -5'
11857 5' -64.4 NC_003266.2 + 8801 0.66 0.194787
Target:  5'- aCCUCgCgGCCACCGuggagcGCGccGGCCGCg -3'
miRNA:   3'- cGGGG-G-CGGUGGCu-----CGCuaCCGGCGa -5'
11857 5' -64.4 NC_003266.2 + 15624 0.66 0.194787
Target:  5'- aCCCCCGCCGCCGcGCccgucuccaccGUGGaCGCc -3'
miRNA:   3'- cGGGGGCGGUGGCuCGc----------UACCgGCGa -5'
11857 5' -64.4 NC_003266.2 + 17726 0.66 0.199914
Target:  5'- cCCCCCGCCGgcuCCGuGgaGAUG-CCGCa -3'
miRNA:   3'- cGGGGGCGGU---GGCuCg-CUACcGGCGa -5'
11857 5' -64.4 NC_003266.2 + 23193 0.66 0.205157
Target:  5'- gGCUCUCGCgGCCcGGCGgGUGGCUGg- -3'
miRNA:   3'- -CGGGGGCGgUGGcUCGC-UACCGGCga -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.