miRNA display CGI


Results 1 - 20 of 20 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
23420 3' -57.4 NC_005259.1 + 28236 0.66 0.633953
Target:  5'- gUCGGCGGCGG-GGUggUcgAUCACGa- -3'
miRNA:   3'- aAGCCGCCGCCgUCGuuA--UGGUGUca -5'
23420 3' -57.4 NC_005259.1 + 10332 0.66 0.633953
Target:  5'- cUCGGCgacgggcucGGCGGCAGCGGgcuCgACAu- -3'
miRNA:   3'- aAGCCG---------CCGCCGUCGUUau-GgUGUca -5'
23420 3' -57.4 NC_005259.1 + 18792 0.66 0.633953
Target:  5'- ---aGCGGUGGCAGgGAcGCCGCAc- -3'
miRNA:   3'- aagcCGCCGCCGUCgUUaUGGUGUca -5'
23420 3' -57.4 NC_005259.1 + 38741 0.66 0.590411
Target:  5'- -cCGGCGGUGGCcc----GCCGCAGg -3'
miRNA:   3'- aaGCCGCCGCCGucguuaUGGUGUCa -5'
23420 3' -57.4 NC_005259.1 + 8549 0.67 0.557014
Target:  5'- cUCGGCGGUGuagcccaugcgccGCAGCAccGCCACc-- -3'
miRNA:   3'- aAGCCGCCGC-------------CGUCGUuaUGGUGuca -5'
23420 3' -57.4 NC_005259.1 + 67161 0.67 0.547414
Target:  5'- gUCGaUGGUGGCGGCcAUGCCGCcGa -3'
miRNA:   3'- aAGCcGCCGCCGUCGuUAUGGUGuCa -5'
23420 3' -57.4 NC_005259.1 + 59139 0.67 0.53681
Target:  5'- gUCGaGCu-CGGCAGCGGUGCCGgGGa -3'
miRNA:   3'- aAGC-CGccGCCGUCGUUAUGGUgUCa -5'
23420 3' -57.4 NC_005259.1 + 11520 0.67 0.515824
Target:  5'- aUCcuCGGCGGCAGCGAUcuugagccguuGCCGCAcGUc -3'
miRNA:   3'- aAGccGCCGCCGUCGUUA-----------UGGUGU-CA- -5'
23420 3' -57.4 NC_005259.1 + 58932 0.67 0.514783
Target:  5'- gUCGGCgggcgcGGUGGCAGCGucgGCCuuggccaGCAGg -3'
miRNA:   3'- aAGCCG------CCGCCGUCGUua-UGG-------UGUCa -5'
23420 3' -57.4 NC_005259.1 + 54499 0.68 0.505455
Target:  5'- aUCGGCGGgcaUGGCGGCGAUGuggggUgGCGGg -3'
miRNA:   3'- aAGCCGCC---GCCGUCGUUAU-----GgUGUCa -5'
23420 3' -57.4 NC_005259.1 + 52774 0.68 0.495177
Target:  5'- gUCGGUGuCGGCAGCGuGUGCCgucgACAGc -3'
miRNA:   3'- aAGCCGCcGCCGUCGU-UAUGG----UGUCa -5'
23420 3' -57.4 NC_005259.1 + 61028 0.68 0.474914
Target:  5'- cUCGGUGGCGGCgaGGUcg-ACCgACGGg -3'
miRNA:   3'- aAGCCGCCGCCG--UCGuuaUGG-UGUCa -5'
23420 3' -57.4 NC_005259.1 + 28324 0.69 0.434732
Target:  5'- aUCGGUGuGCcguccuuGGCGGCGAaaucgagGCCACGGUg -3'
miRNA:   3'- aAGCCGC-CG-------CCGUCGUUa------UGGUGUCA- -5'
23420 3' -57.4 NC_005259.1 + 61750 0.7 0.363222
Target:  5'- -cCGGCGagaucuguGCGGCGGCAAUcaccGCCGCAu- -3'
miRNA:   3'- aaGCCGC--------CGCCGUCGUUA----UGGUGUca -5'
23420 3' -57.4 NC_005259.1 + 55339 0.7 0.363222
Target:  5'- -gCGGCaGCGGUGGCGAUGCCGa--- -3'
miRNA:   3'- aaGCCGcCGCCGUCGUUAUGGUguca -5'
23420 3' -57.4 NC_005259.1 + 8369 0.7 0.35477
Target:  5'- cUCGGCGGCGGCcucggcaucGGCGAgaGCCuCGGc -3'
miRNA:   3'- aAGCCGCCGCCG---------UCGUUa-UGGuGUCa -5'
23420 3' -57.4 NC_005259.1 + 41100 0.71 0.338286
Target:  5'- gUCGGCGGuCGGCGGUaugacGAUGuCgGCGGUg -3'
miRNA:   3'- aAGCCGCC-GCCGUCG-----UUAU-GgUGUCA- -5'
23420 3' -57.4 NC_005259.1 + 41498 0.71 0.330256
Target:  5'- cUCGGCGGUGGCGgGCAG-ACCGUGGa -3'
miRNA:   3'- aAGCCGCCGCCGU-CGUUaUGGUGUCa -5'
23420 3' -57.4 NC_005259.1 + 34072 0.72 0.292225
Target:  5'- -aCGGCGGCGGUguccacacguaGGCccuGUACCACAu- -3'
miRNA:   3'- aaGCCGCCGCCG-----------UCGu--UAUGGUGUca -5'
23420 3' -57.4 NC_005259.1 + 27390 0.72 0.271096
Target:  5'- -cCGGCGGCGGUgucGGCAGcgGCgGCAGc -3'
miRNA:   3'- aaGCCGCCGCCG---UCGUUa-UGgUGUCa -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.