miRNA display CGI


Results 1 - 20 of 42 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
23048 3' -53.2 NC_005178.1 + 37456 0.66 0.733811
Target:  5'- gGAAGCgAUGGa-GGCCGaguUCAGCc -3'
miRNA:   3'- gCUUCGgUACCaaCUGGCgguAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 13376 0.66 0.733811
Target:  5'- gGAGG--AUGGUcuUGACCGCUuucugauagcaGUCGGCa -3'
miRNA:   3'- gCUUCggUACCA--ACUGGCGG-----------UAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 35398 0.66 0.72275
Target:  5'- gCGAGGgCCAacUGGccccggcgcUGGCCGCCAccgaCAGCc -3'
miRNA:   3'- -GCUUC-GGU--ACCa--------ACUGGCGGUa---GUCG- -5'
23048 3' -53.2 NC_005178.1 + 11821 0.66 0.72275
Target:  5'- --uGGCCGcccUGG-UGACCGCgAucauUCGGCa -3'
miRNA:   3'- gcuUCGGU---ACCaACUGGCGgU----AGUCG- -5'
23048 3' -53.2 NC_005178.1 + 19810 0.66 0.72275
Target:  5'- uGccGCCAUGGUggcGACgGUCGagcgCGGCg -3'
miRNA:   3'- gCuuCGGUACCAa--CUGgCGGUa---GUCG- -5'
23048 3' -53.2 NC_005178.1 + 14461 0.66 0.72275
Target:  5'- aCGAcaCCAUGGacgUGAUCaUCAUCGGCa -3'
miRNA:   3'- -GCUucGGUACCa--ACUGGcGGUAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 11214 0.66 0.72275
Target:  5'- gGAAGCCcaGGgcGGCgGCCAg-GGCg -3'
miRNA:   3'- gCUUCGGuaCCaaCUGgCGGUagUCG- -5'
23048 3' -53.2 NC_005178.1 + 5729 0.66 0.716065
Target:  5'- ---cGCCucgGUGGUguaucccugcugggaUGGCuUGCCAUCGGCg -3'
miRNA:   3'- gcuuCGG---UACCA---------------ACUG-GCGGUAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 16526 0.66 0.71159
Target:  5'- aGggGCCAgaGUaGAUCGCgAcUCAGCg -3'
miRNA:   3'- gCuuCGGUacCAaCUGGCGgU-AGUCG- -5'
23048 3' -53.2 NC_005178.1 + 25808 0.66 0.700345
Target:  5'- aGGAGCaacGG--GACCGCCugcUCGGCa -3'
miRNA:   3'- gCUUCGguaCCaaCUGGCGGu--AGUCG- -5'
23048 3' -53.2 NC_005178.1 + 12869 0.66 0.699217
Target:  5'- gGAAGCCGaGGggGACgacugggacaaggCGCaAUCGGCg -3'
miRNA:   3'- gCUUCGGUaCCaaCUG-------------GCGgUAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 22262 0.66 0.689028
Target:  5'- cCGAccGCCA-GGcUGGcCCGCCAggCGGCg -3'
miRNA:   3'- -GCUu-CGGUaCCaACU-GGCGGUa-GUCG- -5'
23048 3' -53.2 NC_005178.1 + 27662 0.66 0.689028
Target:  5'- cCGcuGCCGUGGgcaUGGgCGCgCAaCAGCg -3'
miRNA:   3'- -GCuuCGGUACCa--ACUgGCG-GUaGUCG- -5'
23048 3' -53.2 NC_005178.1 + 17238 0.67 0.677651
Target:  5'- uGGAGCaCAUccaGGcgugacgccUUGGCCaCCGUCAGCg -3'
miRNA:   3'- gCUUCG-GUA---CC---------AACUGGcGGUAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 24396 0.67 0.666228
Target:  5'- -uAGGCCGcuuugaacggcUGGgucggGGCCGgCGUCGGCa -3'
miRNA:   3'- gcUUCGGU-----------ACCaa---CUGGCgGUAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 24866 0.67 0.654769
Target:  5'- gGAAGCuCGUucugccGUUGAUUGCCGUgAGCu -3'
miRNA:   3'- gCUUCG-GUAc-----CAACUGGCGGUAgUCG- -5'
23048 3' -53.2 NC_005178.1 + 7806 0.67 0.654769
Target:  5'- ---cGCCcUGGagGACCGCCA--GGCg -3'
miRNA:   3'- gcuuCGGuACCaaCUGGCGGUagUCG- -5'
23048 3' -53.2 NC_005178.1 + 33002 0.68 0.608822
Target:  5'- aCGuAGCCcccGGUaaACCaGCCAUCGGCa -3'
miRNA:   3'- -GCuUCGGua-CCAacUGG-CGGUAGUCG- -5'
23048 3' -53.2 NC_005178.1 + 26354 0.68 0.605381
Target:  5'- uGAGGCCGUGGcgGuacugucggaaaucACCGCgAcCGGCa -3'
miRNA:   3'- gCUUCGGUACCaaC--------------UGGCGgUaGUCG- -5'
23048 3' -53.2 NC_005178.1 + 20313 0.68 0.597363
Target:  5'- aGAGGCCAaaGGUcgcGGCCGC--UCGGCg -3'
miRNA:   3'- gCUUCGGUa-CCAa--CUGGCGguAGUCG- -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.