miRNA display CGI


Results 1 - 20 of 22 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
5300 3' -57.9 NC_001798.1 + 34804 0.66 0.841715
Target:  5'- gGCCCGGGGc-CCCG--GGGCCC-CCg -3'
miRNA:   3'- -UGGGCUCUaaGGGCuaCUCGGGaGGa -5'
5300 3' -57.9 NC_001798.1 + 82312 0.66 0.841715
Target:  5'- uGCCCG-GAggCCCGGUu-GCCCgCCg -3'
miRNA:   3'- -UGGGCuCUaaGGGCUAcuCGGGaGGa -5'
5300 3' -57.9 NC_001798.1 + 74647 0.66 0.841715
Target:  5'- cCCCGAGGcccCCCGggGGGCCUcgggCCc -3'
miRNA:   3'- uGGGCUCUaa-GGGCuaCUCGGGa---GGa -5'
5300 3' -57.9 NC_001798.1 + 147457 0.66 0.83361
Target:  5'- -aCCGAGAcgCCgCGccgcGUGAGCCgUCCg -3'
miRNA:   3'- ugGGCUCUaaGG-GC----UACUCGGgAGGa -5'
5300 3' -57.9 NC_001798.1 + 132117 0.66 0.83361
Target:  5'- gGCCCGAGG-UCCUGcagGcGGCCCUgCg -3'
miRNA:   3'- -UGGGCUCUaAGGGCua-C-UCGGGAgGa -5'
5300 3' -57.9 NC_001798.1 + 83869 0.66 0.83361
Target:  5'- gGCCCGAGGcggcgaccCCCGGcccGGGCgCUCCg -3'
miRNA:   3'- -UGGGCUCUaa------GGGCUa--CUCGgGAGGa -5'
5300 3' -57.9 NC_001798.1 + 47103 0.66 0.816871
Target:  5'- uCCCGGGggUCCUGGU--GCCCUUUUa -3'
miRNA:   3'- uGGGCUCuaAGGGCUAcuCGGGAGGA- -5'
5300 3' -57.9 NC_001798.1 + 40006 0.67 0.808253
Target:  5'- gACUCGGGGUcgUCgCGgcG-GCCCUCCUc -3'
miRNA:   3'- -UGGGCUCUA--AGgGCuaCuCGGGAGGA- -5'
5300 3' -57.9 NC_001798.1 + 24905 0.67 0.781497
Target:  5'- gGCCCGGcgcUgCCGcgGAGCCCgcgCCUg -3'
miRNA:   3'- -UGGGCUcuaAgGGCuaCUCGGGa--GGA- -5'
5300 3' -57.9 NC_001798.1 + 3795 0.67 0.781497
Target:  5'- cGCCCGAGGc-CUCGAaccGGGCCCgcgCCUc -3'
miRNA:   3'- -UGGGCUCUaaGGGCUa--CUCGGGa--GGA- -5'
5300 3' -57.9 NC_001798.1 + 59890 0.67 0.781497
Target:  5'- gGCCCGAGAgUCCUGG-GAcGCCaagCUCCc -3'
miRNA:   3'- -UGGGCUCUaAGGGCUaCU-CGG---GAGGa -5'
5300 3' -57.9 NC_001798.1 + 134836 0.67 0.772305
Target:  5'- gGCCCGGGuuugaggUCCGGggaGGGCCCgUCCa -3'
miRNA:   3'- -UGGGCUCuaa----GGGCUa--CUCGGG-AGGa -5'
5300 3' -57.9 NC_001798.1 + 134268 0.67 0.766732
Target:  5'- gGCCCuGGAgcgccagacgggCCGGUGGGCCCUCUUc -3'
miRNA:   3'- -UGGGcUCUaag---------GGCUACUCGGGAGGA- -5'
5300 3' -57.9 NC_001798.1 + 7333 0.67 0.760176
Target:  5'- aGCCCcGGGUUcCCCGA-GAGCCCagggaaccgcgaguUCCa -3'
miRNA:   3'- -UGGGcUCUAA-GGGCUaCUCGGG--------------AGGa -5'
5300 3' -57.9 NC_001798.1 + 152189 0.69 0.655024
Target:  5'- gGCCUGAGA--CCCGggGGucGCCCUCUc -3'
miRNA:   3'- -UGGGCUCUaaGGGCuaCU--CGGGAGGa -5'
5300 3' -57.9 NC_001798.1 + 112667 0.69 0.644933
Target:  5'- cUCCGGGcgcAUUCCCGAcgUG-GCCCUCUg -3'
miRNA:   3'- uGGGCUC---UAAGGGCU--ACuCGGGAGGa -5'
5300 3' -57.9 NC_001798.1 + 121193 0.7 0.584444
Target:  5'- cACCCGGGA--CCCGAgcAGCCCcgCCUc -3'
miRNA:   3'- -UGGGCUCUaaGGGCUacUCGGGa-GGA- -5'
5300 3' -57.9 NC_001798.1 + 108474 0.71 0.544691
Target:  5'- uGCCCGAGcucCCCGAggcgGGGCCCacgUCCc -3'
miRNA:   3'- -UGGGCUCuaaGGGCUa---CUCGGG---AGGa -5'
5300 3' -57.9 NC_001798.1 + 28715 0.72 0.496326
Target:  5'- aGCCCGAGg--CCCGAgcucGGGCCCgagCCc -3'
miRNA:   3'- -UGGGCUCuaaGGGCUa---CUCGGGa--GGa -5'
5300 3' -57.9 NC_001798.1 + 70464 0.73 0.423364
Target:  5'- cCCCGAGAccCCCGAggcGGCCUUCCg -3'
miRNA:   3'- uGGGCUCUaaGGGCUac-UCGGGAGGa -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.