miRNA display CGI


Results 1 - 20 of 40 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
23437 3' -60 NC_005259.1 + 58819 0.8 0.05728
Target:  5'- cUCGCgCuGCUCGGCacccUCGCCGCCCUCg -3'
miRNA:   3'- aAGCG-GuUGAGCCGc---AGUGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 42463 0.75 0.14562
Target:  5'- gUCGCCGACUaCGGCGagGCCcgGCCCg- -3'
miRNA:   3'- aAGCGGUUGA-GCCGCagUGG--CGGGag -5'
23437 3' -60 NC_005259.1 + 50443 0.75 0.14562
Target:  5'- -gUGCgGGCUCGGgGUCGCCGgUCUCg -3'
miRNA:   3'- aaGCGgUUGAGCCgCAGUGGCgGGAG- -5'
23437 3' -60 NC_005259.1 + 46554 0.74 0.172469
Target:  5'- gUCGCCGACcgcgccuauggucgCGGCGUCgaccgcGCCGCCCg- -3'
miRNA:   3'- aAGCGGUUGa-------------GCCGCAG------UGGCGGGag -5'
23437 3' -60 NC_005259.1 + 50312 0.73 0.194417
Target:  5'- cUCGUCGuACUCGGCaacgagcucGUCGCgGCCCUUg -3'
miRNA:   3'- aAGCGGU-UGAGCCG---------CAGUGgCGGGAG- -5'
23437 3' -60 NC_005259.1 + 58876 0.72 0.2047
Target:  5'- gUCGUCGcCUCGGCaUCGCCGUCgUCa -3'
miRNA:   3'- aAGCGGUuGAGCCGcAGUGGCGGgAG- -5'
23437 3' -60 NC_005259.1 + 64431 0.72 0.221007
Target:  5'- aUCGCCGACgagcugcCGGgG-CGCUGCCCUUg -3'
miRNA:   3'- aAGCGGUUGa------GCCgCaGUGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 22636 0.71 0.238407
Target:  5'- cUUCGCCGcgUCGGuCGaCGCCGCCCa- -3'
miRNA:   3'- -AAGCGGUugAGCC-GCaGUGGCGGGag -5'
23437 3' -60 NC_005259.1 + 45005 0.7 0.276632
Target:  5'- -cCGCCGACcgcCGGgGccgCGCCGCCCUg -3'
miRNA:   3'- aaGCGGUUGa--GCCgCa--GUGGCGGGAg -5'
23437 3' -60 NC_005259.1 + 58689 0.7 0.276632
Target:  5'- aUCGCgGGgUCGGCucGUCGCCGCCg-- -3'
miRNA:   3'- aAGCGgUUgAGCCG--CAGUGGCGGgag -5'
23437 3' -60 NC_005259.1 + 36669 0.7 0.28346
Target:  5'- cUCGCCGccgccGC-CGGgGUCuugACCGUCCUCg -3'
miRNA:   3'- aAGCGGU-----UGaGCCgCAG---UGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 47898 0.7 0.300388
Target:  5'- -gCGUCGGCUCguugagcgccuugauGGCGUCGCCgagGCCCUg -3'
miRNA:   3'- aaGCGGUUGAG---------------CCGCAGUGG---CGGGAg -5'
23437 3' -60 NC_005259.1 + 44637 0.7 0.30474
Target:  5'- -gCGCCuuGAC-CGGUGcCGCCGCCCg- -3'
miRNA:   3'- aaGCGG--UUGaGCCGCaGUGGCGGGag -5'
23437 3' -60 NC_005259.1 + 27740 0.7 0.312101
Target:  5'- -gCGCCcGCUgcugcccaCGGUG-CAUCGCCCUCg -3'
miRNA:   3'- aaGCGGuUGA--------GCCGCaGUGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 49421 0.69 0.327226
Target:  5'- -aUGCCAGCgagaaacCGGCGagCGCCGCCUUg -3'
miRNA:   3'- aaGCGGUUGa------GCCGCa-GUGGCGGGAg -5'
23437 3' -60 NC_005259.1 + 16652 0.69 0.334989
Target:  5'- -cCGCCGACaauuUCGGgGUgACCGCCUc- -3'
miRNA:   3'- aaGCGGUUG----AGCCgCAgUGGCGGGag -5'
23437 3' -60 NC_005259.1 + 68796 0.69 0.35908
Target:  5'- -aCGCCGGggCGGUGUCGgUGCCCg- -3'
miRNA:   3'- aaGCGGUUgaGCCGCAGUgGCGGGag -5'
23437 3' -60 NC_005259.1 + 7263 0.68 0.36654
Target:  5'- -gCGCCAagaaacuGCUCGGC--UACCGCCC-Cg -3'
miRNA:   3'- aaGCGGU-------UGAGCCGcaGUGGCGGGaG- -5'
23437 3' -60 NC_005259.1 + 56240 0.68 0.367376
Target:  5'- -cCGCCGACcacguugggaUCGGCGgccuugagcgcCGCCGCCCg- -3'
miRNA:   3'- aaGCGGUUG----------AGCCGCa----------GUGGCGGGag -5'
23437 3' -60 NC_005259.1 + 32367 0.68 0.375802
Target:  5'- -cCGCCGugUagGGCGggCACUGCCCg- -3'
miRNA:   3'- aaGCGGUugAg-CCGCa-GUGGCGGGag -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.