miRNA display CGI


Results 1 - 20 of 27 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
23446 5' -65 NC_005259.1 + 67819 0.66 0.320835
Target:  5'- -aGCCCGAucuuguccucgaccGGCAgCCCGGUgagcgggucgaccaaUCGGUGCc -3'
miRNA:   3'- gaCGGGCU--------------CCGUgGGGCCA---------------GGCCGUG- -5'
23446 5' -65 NC_005259.1 + 24807 0.68 0.235961
Target:  5'- -aGaCCGAGGUGCCCCGGcacgCCGugcccGCACc -3'
miRNA:   3'- gaCgGGCUCCGUGGGGCCa---GGC-----CGUG- -5'
23446 5' -65 NC_005259.1 + 23896 0.68 0.249968
Target:  5'- -cGCCCGAGccgccGCGCCCgccgucgaaauacaaCGGUC-GGCACc -3'
miRNA:   3'- gaCGGGCUC-----CGUGGG---------------GCCAGgCCGUG- -5'
23446 5' -65 NC_005259.1 + 13417 0.67 0.253575
Target:  5'- cCUGgCCGGGGuCGCCgCCGGggCC-GCGCu -3'
miRNA:   3'- -GACgGGCUCC-GUGG-GGCCa-GGcCGUG- -5'
23446 5' -65 NC_005259.1 + 16230 0.67 0.253575
Target:  5'- -gGgCCGAacGCACCCCGGUgCUGcGCACc -3'
miRNA:   3'- gaCgGGCUc-CGUGGGGCCA-GGC-CGUG- -5'
23446 5' -65 NC_005259.1 + 64021 0.67 0.253575
Target:  5'- -cGCCCGAGGCGCggcgaggCCGGUgaCCGGa-- -3'
miRNA:   3'- gaCGGGCUCCGUGg------GGCCA--GGCCgug -5'
23446 5' -65 NC_005259.1 + 776 0.67 0.278724
Target:  5'- -cGCgCCGAGGCggcuGCCCuCGGUUgGGUg- -3'
miRNA:   3'- gaCG-GGCUCCG----UGGG-GCCAGgCCGug -5'
23446 5' -65 NC_005259.1 + 29915 0.67 0.283325
Target:  5'- gCUGCCCGAgaccaucgacgcguGGCcgccacgcGgCCCGGUCgCGGCu- -3'
miRNA:   3'- -GACGGGCU--------------CCG--------UgGGGCCAG-GCCGug -5'
23446 5' -65 NC_005259.1 + 37639 0.67 0.285315
Target:  5'- gCUGCCCGAugaccGCACCgCCGccgccgCCGGUGCc -3'
miRNA:   3'- -GACGGGCUc----CGUGG-GGCca----GGCCGUG- -5'
23446 5' -65 NC_005259.1 + 45379 0.68 0.230321
Target:  5'- uUGCCCGAGGaauuUCUCGGggucgccgCCGaGCGCg -3'
miRNA:   3'- gACGGGCUCCgu--GGGGCCa-------GGC-CGUG- -5'
23446 5' -65 NC_005259.1 + 57000 0.68 0.224796
Target:  5'- gCUGCCCGugcGaGCACCUcagcgCGGcUCGGCGCg -3'
miRNA:   3'- -GACGGGCu--C-CGUGGG-----GCCaGGCCGUG- -5'
23446 5' -65 NC_005259.1 + 46248 0.68 0.224796
Target:  5'- -cGCCUGAGGCacgucgACCCCgagGGUCUGcGCGa -3'
miRNA:   3'- gaCGGGCUCCG------UGGGG---CCAGGC-CGUg -5'
23446 5' -65 NC_005259.1 + 50105 0.72 0.116534
Target:  5'- -cGCCCGAGGUugCCCGuacgcaCgGGCACc -3'
miRNA:   3'- gaCGGGCUCCGugGGGCca----GgCCGUG- -5'
23446 5' -65 NC_005259.1 + 31683 0.71 0.139653
Target:  5'- uUGCCCGAGGCAUCCuCGG--CGGUg- -3'
miRNA:   3'- gACGGGCUCCGUGGG-GCCagGCCGug -5'
23446 5' -65 NC_005259.1 + 13483 0.7 0.154686
Target:  5'- gCUGCCCGAcgaugucucGGUcccucGCCCCGGUCuguCGGuCACc -3'
miRNA:   3'- -GACGGGCU---------CCG-----UGGGGCCAG---GCC-GUG- -5'
23446 5' -65 NC_005259.1 + 29779 0.7 0.162741
Target:  5'- --cCCaCGAGGCAcCCCCGGUgccUCGGUACc -3'
miRNA:   3'- gacGG-GCUCCGU-GGGGCCA---GGCCGUG- -5'
23446 5' -65 NC_005259.1 + 44993 0.7 0.166908
Target:  5'- aCUG-CCGAGGCACCgCCGaccgCCGGgGCc -3'
miRNA:   3'- -GACgGGCUCCGUGG-GGCca--GGCCgUG- -5'
23446 5' -65 NC_005259.1 + 63656 0.7 0.179988
Target:  5'- gCUGgCCGGgacgccGGaCACCUCGGgcaCCGGCGCg -3'
miRNA:   3'- -GACgGGCU------CC-GUGGGGCCa--GGCCGUG- -5'
23446 5' -65 NC_005259.1 + 4523 0.69 0.200814
Target:  5'- -cGCUgCGcGGCACCCCGGUcgauugugcccagugCgGGCACg -3'
miRNA:   3'- gaCGG-GCuCCGUGGGGCCA---------------GgCCGUG- -5'
23446 5' -65 NC_005259.1 + 62406 0.68 0.213036
Target:  5'- cCUGCUCGAccacGGCACCCguaucggguggaGGUUCGGaCGCa -3'
miRNA:   3'- -GACGGGCU----CCGUGGGg-----------CCAGGCC-GUG- -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.