miRNA display CGI


Results 1 - 20 of 30 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
29779 3' -56.2 NC_006273.1 + 133980 0.66 0.9561
Target:  5'- cGCggaugagCGUGCugcuCUGCaCGCUCUGUcggaugaGGCAg -3'
miRNA:   3'- -CGa------GCAUGu---GACGaGCGAGACG-------CCGU- -5'
29779 3' -56.2 NC_006273.1 + 22260 0.66 0.95535
Target:  5'- gGCgagCG-ACGCgGCUcCGCcgucggugcgcucaUCUGCGGCAg -3'
miRNA:   3'- -CGa--GCaUGUGaCGA-GCG--------------AGACGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 78306 0.66 0.952658
Target:  5'- uGCUCGcGCACguaGCUCGgaUCUuCGGCu -3'
miRNA:   3'- -CGAGCaUGUGa--CGAGCg-AGAcGCCGu -5'
29779 3' -56.2 NC_006273.1 + 9714 0.66 0.952658
Target:  5'- uGUUgGUGCACUGgUCaucuGCuuUCUGCGGUc -3'
miRNA:   3'- -CGAgCAUGUGACgAG----CG--AGACGCCGu -5'
29779 3' -56.2 NC_006273.1 + 162035 0.66 0.952264
Target:  5'- cGCUgGUGCuggcucuucugcuGgUGCUgGCUCUGCuguGGCGc -3'
miRNA:   3'- -CGAgCAUG-------------UgACGAgCGAGACG---CCGU- -5'
29779 3' -56.2 NC_006273.1 + 50097 0.66 0.948625
Target:  5'- cGCUCGccgACGCUGCgcuucuccaGCcaccgCUGCGGUc -3'
miRNA:   3'- -CGAGCa--UGUGACGag-------CGa----GACGCCGu -5'
29779 3' -56.2 NC_006273.1 + 64850 0.66 0.948625
Target:  5'- --cCGUGCACg---CGCUCUcGCGGCc -3'
miRNA:   3'- cgaGCAUGUGacgaGCGAGA-CGCCGu -5'
29779 3' -56.2 NC_006273.1 + 72818 0.66 0.948625
Target:  5'- cGCUCGc---CUGCUCGCUCgUGC-GCu -3'
miRNA:   3'- -CGAGCauguGACGAGCGAG-ACGcCGu -5'
29779 3' -56.2 NC_006273.1 + 48963 0.66 0.948625
Target:  5'- gGCUaGUACGuaaaguCUGCa-GCUgCUGCGGCAa -3'
miRNA:   3'- -CGAgCAUGU------GACGagCGA-GACGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 46160 0.66 0.944371
Target:  5'- cGCUgCGacACGCUaGCgacCGCcCUGCGGCAu -3'
miRNA:   3'- -CGA-GCa-UGUGA-CGa--GCGaGACGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 189833 0.66 0.939893
Target:  5'- cCUCGgcCACgccgGgUgGCaUCUGCGGCAu -3'
miRNA:   3'- cGAGCauGUGa---CgAgCG-AGACGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 92583 0.66 0.937098
Target:  5'- cGCcCGUGCccaccagcgacggcgGCUGCUguUGCUCgccaGCGGCGc -3'
miRNA:   3'- -CGaGCAUG---------------UGACGA--GCGAGa---CGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 193152 0.67 0.9251
Target:  5'- --gUGUGCGgcCUGCUgUGCUCUGCGGa- -3'
miRNA:   3'- cgaGCAUGU--GACGA-GCGAGACGCCgu -5'
29779 3' -56.2 NC_006273.1 + 196972 0.67 0.9251
Target:  5'- cGCUCGU-CGCUGUUgcCGCcaccgCaGCGGCGg -3'
miRNA:   3'- -CGAGCAuGUGACGA--GCGa----GaCGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 223602 0.67 0.90826
Target:  5'- gGCUUGUuCACgucGUUCGUgggCUGCGGUu -3'
miRNA:   3'- -CGAGCAuGUGa--CGAGCGa--GACGCCGu -5'
29779 3' -56.2 NC_006273.1 + 144453 0.67 0.90826
Target:  5'- gGCUCGcacUACACggGCUCGCgcgcCGGCGu -3'
miRNA:   3'- -CGAGC---AUGUGa-CGAGCGagacGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 66987 0.67 0.90826
Target:  5'- --aCGaACACUGCUUGCUCaaCGGUAg -3'
miRNA:   3'- cgaGCaUGUGACGAGCGAGacGCCGU- -5'
29779 3' -56.2 NC_006273.1 + 40698 0.67 0.902195
Target:  5'- uGCggCGUGCugUGUccggCGCUUUGUGcGCAc -3'
miRNA:   3'- -CGa-GCAUGugACGa---GCGAGACGC-CGU- -5'
29779 3' -56.2 NC_006273.1 + 760 0.67 0.902195
Target:  5'- uGCggCGUGCugUGUccggCGCUUUGUGcGCAc -3'
miRNA:   3'- -CGa-GCAUGugACGa---GCGAGACGC-CGU- -5'
29779 3' -56.2 NC_006273.1 + 21005 0.68 0.895908
Target:  5'- uUUCGUuccuCAC-GCUCGCUCUGCuaaGCGa -3'
miRNA:   3'- cGAGCAu---GUGaCGAGCGAGACGc--CGU- -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.