miRNA display CGI


Results 1 - 20 of 62 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
28143 3' -59.8 NC_005887.1 + 18035 1.08 0.000343
Target:  5'- cGCGCGCCGGACUGACGGCCGACGAUUg -3'
miRNA:   3'- -CGCGCGGCCUGACUGCCGGCUGCUAA- -5'
28143 3' -59.8 NC_005887.1 + 11386 0.82 0.02837
Target:  5'- aGCGCaGCCGGagcGCUGGCGGCCGGCGc-- -3'
miRNA:   3'- -CGCG-CGGCC---UGACUGCCGGCUGCuaa -5'
28143 3' -59.8 NC_005887.1 + 32362 0.76 0.089488
Target:  5'- gGCGCGCCGG-CUGGC--CCGACGAUc -3'
miRNA:   3'- -CGCGCGGCCuGACUGccGGCUGCUAa -5'
28143 3' -59.8 NC_005887.1 + 22941 0.76 0.092042
Target:  5'- aGCGCGCgaGGAuCUGauaGCGGCCGGCGGc- -3'
miRNA:   3'- -CGCGCGg-CCU-GAC---UGCCGGCUGCUaa -5'
28143 3' -59.8 NC_005887.1 + 8347 0.75 0.108874
Target:  5'- cGCGUGCCGu-CUGGCGGCCGaagccuGCGAa- -3'
miRNA:   3'- -CGCGCGGCcuGACUGCCGGC------UGCUaa -5'
28143 3' -59.8 NC_005887.1 + 14092 0.74 0.128559
Target:  5'- gGCuGCGCCGG-C-GGCGcGCCGGCGGUUg -3'
miRNA:   3'- -CG-CGCGGCCuGaCUGC-CGGCUGCUAA- -5'
28143 3' -59.8 NC_005887.1 + 23648 0.73 0.143462
Target:  5'- aGCGCGUCGuagucgcguucGcACUGcCGGCCGGCGAUg -3'
miRNA:   3'- -CGCGCGGC-----------C-UGACuGCCGGCUGCUAa -5'
28143 3' -59.8 NC_005887.1 + 11224 0.72 0.164303
Target:  5'- cGUGCGCCGGAaauauACGGUCGAUGGc- -3'
miRNA:   3'- -CGCGCGGCCUgac--UGCCGGCUGCUaa -5'
28143 3' -59.8 NC_005887.1 + 35333 0.72 0.164303
Target:  5'- cGCGCGCCGcGGCgGcCGGCC-ACGAg- -3'
miRNA:   3'- -CGCGCGGC-CUGaCuGCCGGcUGCUaa -5'
28143 3' -59.8 NC_005887.1 + 13399 0.72 0.172912
Target:  5'- gGCGCGgCGGACgucGGCGGCaagccgcugcugaCGACGAg- -3'
miRNA:   3'- -CGCGCgGCCUGa--CUGCCG-------------GCUGCUaa -5'
28143 3' -59.8 NC_005887.1 + 33342 0.72 0.173377
Target:  5'- aGUGCGCCGG-CUG-CGGCgGgACGAa- -3'
miRNA:   3'- -CGCGCGGCCuGACuGCCGgC-UGCUaa -5'
28143 3' -59.8 NC_005887.1 + 4773 0.71 0.192872
Target:  5'- -aGCGCgGGaaGCUGACGccaGCCGGCGAg- -3'
miRNA:   3'- cgCGCGgCC--UGACUGC---CGGCUGCUaa -5'
28143 3' -59.8 NC_005887.1 + 599 0.71 0.20873
Target:  5'- gGCGCGgCGcGC-GGCGGCCGACGcgUu -3'
miRNA:   3'- -CGCGCgGCcUGaCUGCCGGCUGCuaA- -5'
28143 3' -59.8 NC_005887.1 + 14681 0.7 0.214262
Target:  5'- aGCGCGCCcucGACggcgccGACGGCCGuACGcgUa -3'
miRNA:   3'- -CGCGCGGc--CUGa-----CUGCCGGC-UGCuaA- -5'
28143 3' -59.8 NC_005887.1 + 4405 0.7 0.214262
Target:  5'- uGCGCGCCGG-C-GAaGGCgCGGCGAUc -3'
miRNA:   3'- -CGCGCGGCCuGaCUgCCG-GCUGCUAa -5'
28143 3' -59.8 NC_005887.1 + 882 0.7 0.219918
Target:  5'- cGCGcCGCCGGACgagucaGGCGGCCu-CGGc- -3'
miRNA:   3'- -CGC-GCGGCCUGa-----CUGCCGGcuGCUaa -5'
28143 3' -59.8 NC_005887.1 + 12221 0.7 0.231017
Target:  5'- gGCGCGCCGGAuuucacgccaaacCUGAUcaagGGCuuCGACGAc- -3'
miRNA:   3'- -CGCGCGGCCU-------------GACUG----CCG--GCUGCUaa -5'
28143 3' -59.8 NC_005887.1 + 34036 0.7 0.231614
Target:  5'- -gGCGCCGGuGCUGACGgacGCCGcacGCGAc- -3'
miRNA:   3'- cgCGCGGCC-UGACUGC---CGGC---UGCUaa -5'
28143 3' -59.8 NC_005887.1 + 10224 0.7 0.243829
Target:  5'- cCGCGCCGGAC-GGCGcGuCUGAUGAc- -3'
miRNA:   3'- cGCGCGGCCUGaCUGC-C-GGCUGCUaa -5'
28143 3' -59.8 NC_005887.1 + 35144 0.7 0.243829
Target:  5'- -gGCGCCacGGACgGGCGGCCGucacgcugcACGAUc -3'
miRNA:   3'- cgCGCGG--CCUGaCUGCCGGC---------UGCUAa -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.