miRNA display CGI


Results 1 - 20 of 64 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
28084 3' -60.1 NC_005887.1 + 20657 0.66 0.423053
Target:  5'- --aCGAgacGCUCGCACCGUuugCAGCugcccCCGAc -3'
miRNA:   3'- gcaGCU---CGAGCGUGGCGa--GUCG-----GGCU- -5'
28084 3' -60.1 NC_005887.1 + 798 0.66 0.413779
Target:  5'- gCG-CGAGCUCGCgAUCGCgaucaaCAGCCa-- -3'
miRNA:   3'- -GCaGCUCGAGCG-UGGCGa-----GUCGGgcu -5'
28084 3' -60.1 NC_005887.1 + 1489 0.66 0.413779
Target:  5'- gCGUgCGGcGCUCGCGCgGCgCGGCCg-- -3'
miRNA:   3'- -GCA-GCU-CGAGCGUGgCGaGUCGGgcu -5'
28084 3' -60.1 NC_005887.1 + 32913 0.66 0.412858
Target:  5'- gGUCGuugguguAGCccgugauaGCACCGUUCcauAGCCCGAg -3'
miRNA:   3'- gCAGC-------UCGag------CGUGGCGAG---UCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 38623 0.66 0.412858
Target:  5'- cCGUCcAGCUUGCGCggaucgcggucggCGCgCGGCUCGAc -3'
miRNA:   3'- -GCAGcUCGAGCGUG-------------GCGaGUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 27032 0.66 0.404631
Target:  5'- uCGgCGAGCgCGCgACCGCgcacgcugCcGCCCGAc -3'
miRNA:   3'- -GCaGCUCGaGCG-UGGCGa-------GuCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 5116 0.66 0.403724
Target:  5'- aCGagGuGCUCGCcaagcucggcaugACCGCgCuGCCCGAc -3'
miRNA:   3'- -GCagCuCGAGCG-------------UGGCGaGuCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 26695 0.66 0.395612
Target:  5'- uGUCGcgauacAGCcgUCGCgcgGCCGCgggCAGCUCGAc -3'
miRNA:   3'- gCAGC------UCG--AGCG---UGGCGa--GUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 16214 0.66 0.390264
Target:  5'- uCGUCGAGCgccgcgaaacgaagCGCGCCGUgCAggacauccuGCUCGAc -3'
miRNA:   3'- -GCAGCUCGa-------------GCGUGGCGaGU---------CGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 41226 0.66 0.386724
Target:  5'- cCGUgacCGAGCUcgacaagcacaCGCACCuGCUCGGCgUCGGc -3'
miRNA:   3'- -GCA---GCUCGA-----------GCGUGG-CGAGUCG-GGCU- -5'
28084 3' -60.1 NC_005887.1 + 23937 0.66 0.3771
Target:  5'- aCGUCGGccucgcggcgucuGCgcaCGCACCGacgacCUCGGCCCa- -3'
miRNA:   3'- -GCAGCU-------------CGa--GCGUGGC-----GAGUCGGGcu -5'
28084 3' -60.1 NC_005887.1 + 17282 0.66 0.376233
Target:  5'- aCGUCGGGCg-GCGCCGCgcgcgcaaacgcCGGUUCGGc -3'
miRNA:   3'- -GCAGCUCGagCGUGGCGa-----------GUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 6639 0.67 0.369347
Target:  5'- -cUCGgcauGGCUCGUugUGUggGGCCCGAa -3'
miRNA:   3'- gcAGC----UCGAGCGugGCGagUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 8923 0.67 0.369347
Target:  5'- uCGUCGAGgaUCGU-CUGCUCGGUCgCGGu -3'
miRNA:   3'- -GCAGCUCg-AGCGuGGCGAGUCGG-GCU- -5'
28084 3' -60.1 NC_005887.1 + 17967 0.67 0.360861
Target:  5'- gCG-CGGGCUCGCcggcaucgGCCGCaccgacuggaaCAGCCUGAc -3'
miRNA:   3'- -GCaGCUCGAGCG--------UGGCGa----------GUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 1386 0.67 0.360861
Target:  5'- gCGUCGcGCUCGUucaucaugggcCCGCUCGGCagCGGc -3'
miRNA:   3'- -GCAGCuCGAGCGu----------GGCGAGUCGg-GCU- -5'
28084 3' -60.1 NC_005887.1 + 37861 0.67 0.352512
Target:  5'- aCGcgCGAuGCgCGCGCCGUUCGGCaCCu- -3'
miRNA:   3'- -GCa-GCU-CGaGCGUGGCGAGUCG-GGcu -5'
28084 3' -60.1 NC_005887.1 + 13934 0.67 0.352512
Target:  5'- --aCGAGCgccUGCGCgCGCUCGGCUgCGAc -3'
miRNA:   3'- gcaGCUCGa--GCGUG-GCGAGUCGG-GCU- -5'
28084 3' -60.1 NC_005887.1 + 14478 0.67 0.344301
Target:  5'- uGUCGGGcCUCGCGCagaUCGuGCCCGc -3'
miRNA:   3'- gCAGCUC-GAGCGUGgcgAGU-CGGGCu -5'
28084 3' -60.1 NC_005887.1 + 1369 0.67 0.336228
Target:  5'- -uUCGAGCUCGgGCaCGUacaUCAGgCCCGc -3'
miRNA:   3'- gcAGCUCGAGCgUG-GCG---AGUC-GGGCu -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.