miRNA display CGI


Results 1 - 19 of 19 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
23930 3' -53.2 NC_005262.1 + 36198 0.66 0.888867
Target:  5'- aCGGCCUGuUCGcuGUCgAGcGGAUUGGCa -3'
miRNA:   3'- gGCUGGAC-AGCucCAG-UC-UCUAGUCG- -5'
23930 3' -53.2 NC_005262.1 + 6594 0.66 0.881502
Target:  5'- gCCGACCggcagGUCcGGGUCGagcGGGAgcgacacgagCGGCg -3'
miRNA:   3'- -GGCUGGa----CAGcUCCAGU---CUCUa---------GUCG- -5'
23930 3' -53.2 NC_005262.1 + 47262 0.66 0.881502
Target:  5'- gCGGCUucgcaucuucggUGUcCGGGGUCAGccccAGcgCAGCg -3'
miRNA:   3'- gGCUGG------------ACA-GCUCCAGUC----UCuaGUCG- -5'
23930 3' -53.2 NC_005262.1 + 989 0.66 0.866026
Target:  5'- gCGACCUG-CGGGG-CGGGG--CGGUg -3'
miRNA:   3'- gGCUGGACaGCUCCaGUCUCuaGUCG- -5'
23930 3' -53.2 NC_005262.1 + 60211 0.66 0.857925
Target:  5'- gCCGGCCgg-CGAGGUCGGca---AGCu -3'
miRNA:   3'- -GGCUGGacaGCUCCAGUCucuagUCG- -5'
23930 3' -53.2 NC_005262.1 + 24980 0.66 0.857925
Target:  5'- gCCGGCUUgGUCGAGGcggCAuucGAGcgCGGUc -3'
miRNA:   3'- -GGCUGGA-CAGCUCCa--GU---CUCuaGUCG- -5'
23930 3' -53.2 NC_005262.1 + 62537 0.67 0.849594
Target:  5'- gCCGGCCUuugggcgGUUGuggggaucacguccuGGUCGGAGG-CGGCg -3'
miRNA:   3'- -GGCUGGA-------CAGCu--------------CCAGUCUCUaGUCG- -5'
23930 3' -53.2 NC_005262.1 + 18018 0.67 0.841038
Target:  5'- cCCGACgagaCUGUCGAaauGGUCAc-GAUCAcGCg -3'
miRNA:   3'- -GGCUG----GACAGCU---CCAGUcuCUAGU-CG- -5'
23930 3' -53.2 NC_005262.1 + 61294 0.68 0.804752
Target:  5'- gCGGCCaGccucgCGGGGUCGGAuauGggCAGCa -3'
miRNA:   3'- gGCUGGaCa----GCUCCAGUCU---CuaGUCG- -5'
23930 3' -53.2 NC_005262.1 + 15971 0.68 0.765633
Target:  5'- gUCGACCUGcuggCGA--UCGacGAGAUCGGCg -3'
miRNA:   3'- -GGCUGGACa---GCUccAGU--CUCUAGUCG- -5'
23930 3' -53.2 NC_005262.1 + 45864 0.68 0.755489
Target:  5'- gCGACCUGcUCGccguuGGcGUCGGcgccGAUCGGCg -3'
miRNA:   3'- gGCUGGAC-AGC-----UC-CAGUCu---CUAGUCG- -5'
23930 3' -53.2 NC_005262.1 + 62383 0.68 0.755489
Target:  5'- gCGGCCgcgGUCGuGG-CGGAucAUCAGCg -3'
miRNA:   3'- gGCUGGa--CAGCuCCaGUCUc-UAGUCG- -5'
23930 3' -53.2 NC_005262.1 + 31275 0.69 0.734842
Target:  5'- gCGGCCcGUCc-GGUCAGcGGUUAGCu -3'
miRNA:   3'- gGCUGGaCAGcuCCAGUCuCUAGUCG- -5'
23930 3' -53.2 NC_005262.1 + 17629 0.69 0.70314
Target:  5'- cUCGGCC-GUCGc-GUCGGAGAUC-GCg -3'
miRNA:   3'- -GGCUGGaCAGCucCAGUCUCUAGuCG- -5'
23930 3' -53.2 NC_005262.1 + 19117 0.72 0.540953
Target:  5'- aCGGCUUGUCGcGGUCGGg---CAGCa -3'
miRNA:   3'- gGCUGGACAGCuCCAGUCucuaGUCG- -5'
23930 3' -53.2 NC_005262.1 + 62650 0.72 0.540953
Target:  5'- cCCGAUUUG-CGAGcGUCGGGGGUgGGUu -3'
miRNA:   3'- -GGCUGGACaGCUC-CAGUCUCUAgUCG- -5'
23930 3' -53.2 NC_005262.1 + 43575 0.73 0.519914
Target:  5'- -aGACgUGg-GAGGUC-GAGGUCAGCg -3'
miRNA:   3'- ggCUGgACagCUCCAGuCUCUAGUCG- -5'
23930 3' -53.2 NC_005262.1 + 31021 0.73 0.478869
Target:  5'- gCCG-CCggUGUCGAGcuuGUCGGcGAUCAGCa -3'
miRNA:   3'- -GGCuGG--ACAGCUC---CAGUCuCUAGUCG- -5'
23930 3' -53.2 NC_005262.1 + 27447 1.14 0.001018
Target:  5'- aCCGACCUGUCGAGGUCAGAGAUCAGCu -3'
miRNA:   3'- -GGCUGGACAGCUCCAGUCUCUAGUCG- -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.