miRNA display CGI


Results 1 - 20 of 34 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
23196 3' -60.9 NC_005259.1 + 11226 0.66 0.516638
Target:  5'- aCGCCgcaguccucggGCUCGGgcaUCGCGcGCACCaCGUGg -3'
miRNA:   3'- gGCGGa----------CGAGCU---GGUGC-CGUGG-GCAU- -5'
23196 3' -60.9 NC_005259.1 + 49767 0.66 0.506723
Target:  5'- gCCGUCUGCguugaaugUGGCCAUGGUugguuuccuCCCGa- -3'
miRNA:   3'- -GGCGGACGa-------GCUGGUGCCGu--------GGGCau -5'
23196 3' -60.9 NC_005259.1 + 55361 0.66 0.496889
Target:  5'- aCGCCUGa---GCgACGGCAgCCGUGa -3'
miRNA:   3'- gGCGGACgagcUGgUGCCGUgGGCAU- -5'
23196 3' -60.9 NC_005259.1 + 20494 0.66 0.487142
Target:  5'- aCCGCCcgGCagcucaUCGGCgACGGUGuCCCGa- -3'
miRNA:   3'- -GGCGGa-CG------AGCUGgUGCCGU-GGGCau -5'
23196 3' -60.9 NC_005259.1 + 28275 0.66 0.487142
Target:  5'- aCCGUCgGCUCugccgauguaGGCCACGGUgccGCCCu-- -3'
miRNA:   3'- -GGCGGaCGAG----------CUGGUGCCG---UGGGcau -5'
23196 3' -60.9 NC_005259.1 + 37214 0.66 0.477486
Target:  5'- aCCGCCgccGC-CG-CCGgGGCgcugGCCCGUGc -3'
miRNA:   3'- -GGCGGa--CGaGCuGGUgCCG----UGGGCAU- -5'
23196 3' -60.9 NC_005259.1 + 63588 0.66 0.477486
Target:  5'- gCCGCCUGgcuguuCUCGuccuCCAUGGCGgCCa-- -3'
miRNA:   3'- -GGCGGAC------GAGCu---GGUGCCGUgGGcau -5'
23196 3' -60.9 NC_005259.1 + 44087 0.66 0.455647
Target:  5'- gCUGaCCUGCUCGAUCACGucgaccaucugcucGCgcaucGCCUGUAg -3'
miRNA:   3'- -GGC-GGACGAGCUGGUGC--------------CG-----UGGGCAU- -5'
23196 3' -60.9 NC_005259.1 + 68616 0.67 0.449108
Target:  5'- aCCGCUUGUU-GGCCAgccgGGCACCCu-- -3'
miRNA:   3'- -GGCGGACGAgCUGGUg---CCGUGGGcau -5'
23196 3' -60.9 NC_005259.1 + 28963 0.67 0.439856
Target:  5'- aUCGCCgaggucggUGCcgaGGCCGCGaGCGCCCGc- -3'
miRNA:   3'- -GGCGG--------ACGag-CUGGUGC-CGUGGGCau -5'
23196 3' -60.9 NC_005259.1 + 45340 0.67 0.439856
Target:  5'- -gGCCUGCgCcGCCugGGCcGCCgCGUAg -3'
miRNA:   3'- ggCGGACGaGcUGGugCCG-UGG-GCAU- -5'
23196 3' -60.9 NC_005259.1 + 46805 0.67 0.430715
Target:  5'- -aGCCUGCgagCGcACCAcCGGCcACCUGa- -3'
miRNA:   3'- ggCGGACGa--GC-UGGU-GCCG-UGGGCau -5'
23196 3' -60.9 NC_005259.1 + 37277 0.67 0.421685
Target:  5'- gCCGCCcgGCagGACUugcaugGCGGUGCCCGc- -3'
miRNA:   3'- -GGCGGa-CGagCUGG------UGCCGUGGGCau -5'
23196 3' -60.9 NC_005259.1 + 20804 0.67 0.421685
Target:  5'- gCCaCCUGCUCGuCCcgucGCGGCGCaCCa-- -3'
miRNA:   3'- -GGcGGACGAGCuGG----UGCCGUG-GGcau -5'
23196 3' -60.9 NC_005259.1 + 35885 0.67 0.421685
Target:  5'- gCCGCCgagGCa-GACCACGGCGagCCa-- -3'
miRNA:   3'- -GGCGGa--CGagCUGGUGCCGUg-GGcau -5'
23196 3' -60.9 NC_005259.1 + 8148 0.67 0.403974
Target:  5'- gCGCCcucguUGCUCuGGCCAUGGCcugaggcuaccCCCGUGg -3'
miRNA:   3'- gGCGG-----ACGAG-CUGGUGCCGu----------GGGCAU- -5'
23196 3' -60.9 NC_005259.1 + 6580 0.67 0.403974
Target:  5'- gCCGCCUcggacaaaugGCUCGACUAcCGGaucacCCCGUc -3'
miRNA:   3'- -GGCGGA----------CGAGCUGGU-GCCgu---GGGCAu -5'
23196 3' -60.9 NC_005259.1 + 68739 0.68 0.395296
Target:  5'- gCCGCUUgccgaGCUCGACCcCGGCgACCuCGc- -3'
miRNA:   3'- -GGCGGA-----CGAGCUGGuGCCG-UGG-GCau -5'
23196 3' -60.9 NC_005259.1 + 46300 0.68 0.38674
Target:  5'- gCCGCCgugGCUgCGuuguUCGCGGC-CCCGa- -3'
miRNA:   3'- -GGCGGa--CGA-GCu---GGUGCCGuGGGCau -5'
23196 3' -60.9 NC_005259.1 + 8869 0.68 0.38674
Target:  5'- gCCGCCUGC-CGcacCCACGcCGCCUGa- -3'
miRNA:   3'- -GGCGGACGaGCu--GGUGCcGUGGGCau -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.