miRNA display CGI


Results 1 - 20 of 39 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
26858 3' -59.9 NC_005809.1 + 985 0.7 0.218767
Target:  5'- aCUUGGCCGcc-UGGCGGUGCcgugguucaCCGCa -3'
miRNA:   3'- -GGACCGGCuacGCCGCCACGua-------GGCG- -5'
26858 3' -59.9 NC_005809.1 + 1225 0.66 0.411125
Target:  5'- -aUGGCCGAUGaGGCGGUcgaaaGCGgugUCGa -3'
miRNA:   3'- ggACCGGCUACgCCGCCA-----CGUa--GGCg -5'
26858 3' -59.9 NC_005809.1 + 1709 0.67 0.342114
Target:  5'- gCCgugGGCCGGcgUGcCGGCGaGgGCGUCCa- -3'
miRNA:   3'- -GGa--CCGGCU--AC-GCCGC-CaCGUAGGcg -5'
26858 3' -59.9 NC_005809.1 + 4287 0.7 0.224491
Target:  5'- -aUGGCCG-UGuCGGCGGUGaa-CUGCa -3'
miRNA:   3'- ggACCGGCuAC-GCCGCCACguaGGCG- -5'
26858 3' -59.9 NC_005809.1 + 4352 0.66 0.42034
Target:  5'- gCUGGCCGuUGCGuugcCGGUGCG--CGUg -3'
miRNA:   3'- gGACCGGCuACGCc---GCCACGUagGCG- -5'
26858 3' -59.9 NC_005809.1 + 5197 0.66 0.439138
Target:  5'- ---uGCUGGUGCuGGUGGUGCuggCCuGCa -3'
miRNA:   3'- ggacCGGCUACG-CCGCCACGua-GG-CG- -5'
26858 3' -59.9 NC_005809.1 + 5600 0.67 0.366987
Target:  5'- uUUGGCCcacucgGCGG-GGUGCGuUUCGCg -3'
miRNA:   3'- gGACCGGcua---CGCCgCCACGU-AGGCG- -5'
26858 3' -59.9 NC_005809.1 + 8625 0.68 0.318481
Target:  5'- uUCUcGGCCGcUGCGGUGGcgagGUcgCCGg -3'
miRNA:   3'- -GGA-CCGGCuACGCCGCCa---CGuaGGCg -5'
26858 3' -59.9 NC_005809.1 + 8649 0.66 0.433448
Target:  5'- cCCaGGCCGcgccguacucgcuguGUGCaGCGGcUGCugcgCCGCc -3'
miRNA:   3'- -GGaCCGGC---------------UACGcCGCC-ACGua--GGCG- -5'
26858 3' -59.9 NC_005809.1 + 9317 0.72 0.163696
Target:  5'- aCCUGGCggcgcacguCGgcGCGGCGGgcggcgGCAUCCu- -3'
miRNA:   3'- -GGACCG---------GCuaCGCCGCCa-----CGUAGGcg -5'
26858 3' -59.9 NC_005809.1 + 9648 0.69 0.261541
Target:  5'- cCCUGGCCGAacagccagccgUGCaGGCcGUGg--CCGCa -3'
miRNA:   3'- -GGACCGGCU-----------ACG-CCGcCACguaGGCG- -5'
26858 3' -59.9 NC_005809.1 + 9748 0.66 0.402036
Target:  5'- ---aGCCGuUGCGGCuGGUGUAgUCCGa -3'
miRNA:   3'- ggacCGGCuACGCCG-CCACGU-AGGCg -5'
26858 3' -59.9 NC_005809.1 + 11182 0.69 0.281864
Target:  5'- gCUGGUCGGccGUGGUgauGGUGCGgucaaugCCGCg -3'
miRNA:   3'- gGACCGGCUa-CGCCG---CCACGUa------GGCG- -5'
26858 3' -59.9 NC_005809.1 + 11517 0.67 0.358559
Target:  5'- gCCUGcGCUGGcgugaggcccUGCGaGCGG-GCAUCCu- -3'
miRNA:   3'- -GGAC-CGGCU----------ACGC-CGCCaCGUAGGcg -5'
26858 3' -59.9 NC_005809.1 + 12685 0.68 0.295372
Target:  5'- gCCUGucauGCCGGgggGgGGUGGUGCuagacccGUUCGCa -3'
miRNA:   3'- -GGAC----CGGCUa--CgCCGCCACG-------UAGGCG- -5'
26858 3' -59.9 NC_005809.1 + 13485 0.67 0.356057
Target:  5'- aCCUGGgCGAUGCcgaccgcgccuuugGGCGaGguaagcgguuUGCcGUCCGCg -3'
miRNA:   3'- -GGACCgGCUACG--------------CCGC-C----------ACG-UAGGCG- -5'
26858 3' -59.9 NC_005809.1 + 13552 0.69 0.26818
Target:  5'- aCCUGGCCGAaGC-GCGGcGCcuggUCGCc -3'
miRNA:   3'- -GGACCGGCUaCGcCGCCaCGua--GGCG- -5'
26858 3' -59.9 NC_005809.1 + 14352 0.75 0.099757
Target:  5'- gCUGGUucgCGGUGUccuggaaGGCGGggGCAUCCGCg -3'
miRNA:   3'- gGACCG---GCUACG-------CCGCCa-CGUAGGCG- -5'
26858 3' -59.9 NC_005809.1 + 14578 0.75 0.105752
Target:  5'- aCCgGGCUGAUGcCGGCGGccgAUCCGCu -3'
miRNA:   3'- -GGaCCGGCUAC-GCCGCCacgUAGGCG- -5'
26858 3' -59.9 NC_005809.1 + 14836 0.71 0.207694
Target:  5'- cCCaGGUCGAUGCcguuGGCGGccaGCG-CCGCa -3'
miRNA:   3'- -GGaCCGGCUACG----CCGCCa--CGUaGGCG- -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.