miRNA display CGI


Results 1 - 20 of 44 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
30494 3' -55.4 NC_006548.1 + 17358 0.66 0.626157
Target:  5'- uGCGGaacaccuuuUCAUCCcGCUCGGCCuuGGCg -3'
miRNA:   3'- -CGCCgcu------AGUAGGcCGAGUUGGu-CUG- -5'
30494 3' -55.4 NC_006548.1 + 36997 0.66 0.614875
Target:  5'- aGCGGUaccagccugaaGAagUCGUacaCCGGCUUGACCGGcACg -3'
miRNA:   3'- -CGCCG-----------CU--AGUA---GGCCGAGUUGGUC-UG- -5'
30494 3' -55.4 NC_006548.1 + 24524 0.66 0.614875
Target:  5'- aGUGGCGGUCuugCCGcGCUgCAAgCGGcCa -3'
miRNA:   3'- -CGCCGCUAGua-GGC-CGA-GUUgGUCuG- -5'
30494 3' -55.4 NC_006548.1 + 7144 0.66 0.614875
Target:  5'- cUGGUGAUCAgcaCGGCguugauccacUCGGCCcGACa -3'
miRNA:   3'- cGCCGCUAGUag-GCCG----------AGUUGGuCUG- -5'
30494 3' -55.4 NC_006548.1 + 12516 0.66 0.614875
Target:  5'- aGCuGGCcucggCAUCCGGCgcCGACCAG-Cu -3'
miRNA:   3'- -CG-CCGcua--GUAGGCCGa-GUUGGUCuG- -5'
30494 3' -55.4 NC_006548.1 + 28405 0.66 0.603608
Target:  5'- aUGGCaagGGUUcaGUCCGcGCUCGACgAGGCc -3'
miRNA:   3'- cGCCG---CUAG--UAGGC-CGAGUUGgUCUG- -5'
30494 3' -55.4 NC_006548.1 + 19104 0.66 0.603608
Target:  5'- aCGGCGAgCAcuggaCGuGCUCAACgCGGGCa -3'
miRNA:   3'- cGCCGCUaGUag---GC-CGAGUUG-GUCUG- -5'
30494 3' -55.4 NC_006548.1 + 31525 0.66 0.603608
Target:  5'- aGCGGCGGccaguacgUAUgCGGCUCcguaaucuAUCAGGCa -3'
miRNA:   3'- -CGCCGCUa-------GUAgGCCGAGu-------UGGUCUG- -5'
30494 3' -55.4 NC_006548.1 + 22320 0.66 0.600233
Target:  5'- -gGGCGGUCAggCCGaagguggugccguuGCgggugUCGGCCAGGCg -3'
miRNA:   3'- cgCCGCUAGUa-GGC--------------CG-----AGUUGGUCUG- -5'
30494 3' -55.4 NC_006548.1 + 14395 0.66 0.592367
Target:  5'- aCGGCuGggCAgcucgCCGGCuUCGGCCuGGCu -3'
miRNA:   3'- cGCCG-CuaGUa----GGCCG-AGUUGGuCUG- -5'
30494 3' -55.4 NC_006548.1 + 2376 0.66 0.592367
Target:  5'- cCGGCGGUuuucCAUCCGaGC-CGGCUGGAa -3'
miRNA:   3'- cGCCGCUA----GUAGGC-CGaGUUGGUCUg -5'
30494 3' -55.4 NC_006548.1 + 14206 0.66 0.591245
Target:  5'- gGCGGaaaucauCGAUCucCCGGCU--ACCGGACc -3'
miRNA:   3'- -CGCC-------GCUAGuaGGCCGAguUGGUCUG- -5'
30494 3' -55.4 NC_006548.1 + 32713 0.66 0.581162
Target:  5'- cGCaGCGAUCG-CCGuuGCUCGACUcccGACg -3'
miRNA:   3'- -CGcCGCUAGUaGGC--CGAGUUGGu--CUG- -5'
30494 3' -55.4 NC_006548.1 + 31717 0.66 0.581162
Target:  5'- -gGGCGAggggccgcCAUCCaGGC-CAuCCAGGCg -3'
miRNA:   3'- cgCCGCUa-------GUAGG-CCGaGUuGGUCUG- -5'
30494 3' -55.4 NC_006548.1 + 16647 0.66 0.581162
Target:  5'- uGUaGCGGUCGUCgCGGCcguagaUCAGCuCGGAUa -3'
miRNA:   3'- -CGcCGCUAGUAG-GCCG------AGUUG-GUCUG- -5'
30494 3' -55.4 NC_006548.1 + 22154 0.66 0.570001
Target:  5'- cGCGGCuGAaCAUC--GCUCGGCCGGGg -3'
miRNA:   3'- -CGCCG-CUaGUAGgcCGAGUUGGUCUg -5'
30494 3' -55.4 NC_006548.1 + 24592 0.66 0.570001
Target:  5'- -gGGCGAUCugaaagCCGGCgacuucgugaAGCUGGACg -3'
miRNA:   3'- cgCCGCUAGua----GGCCGag--------UUGGUCUG- -5'
30494 3' -55.4 NC_006548.1 + 12830 0.67 0.558893
Target:  5'- aGCGGCGcgguaaGUCCGGUgUGGCuCGGGCg -3'
miRNA:   3'- -CGCCGCuag---UAGGCCGaGUUG-GUCUG- -5'
30494 3' -55.4 NC_006548.1 + 35426 0.67 0.558893
Target:  5'- aGCaGUGAUCAgcCUGGCcggCGACCAGGu -3'
miRNA:   3'- -CGcCGCUAGUa-GGCCGa--GUUGGUCUg -5'
30494 3' -55.4 NC_006548.1 + 8377 0.67 0.547847
Target:  5'- uGUGaGCGaAUCggCCGucuucucuacGCUCGGCCAGGCc -3'
miRNA:   3'- -CGC-CGC-UAGuaGGC----------CGAGUUGGUCUG- -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.