miRNA display CGI


Results 1 - 20 of 28 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
2657 3' -55.1 NC_001491.2 + 1459 0.7 0.776567
Target:  5'- aGCCUCGguGAUGGgcagcaccagggGCUCgg-CCUCGGc -3'
miRNA:   3'- -CGGAGCguCUACU------------UGGGaugGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 1667 0.69 0.82118
Target:  5'- uCCUCaaagucCGGGUcgugGAACCCgagGCCCUCGGc -3'
miRNA:   3'- cGGAGc-----GUCUA----CUUGGGa--UGGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 2553 0.67 0.91172
Target:  5'- gGCCUCGgGGAacagcugguugucgaUGAGCUCcGCCaccagCUCGGg -3'
miRNA:   3'- -CGGAGCgUCU---------------ACUUGGGaUGG-----GAGCC- -5'
2657 3' -55.1 NC_001491.2 + 2648 0.68 0.877014
Target:  5'- aGUCUcCGCGGGgaacgcgccUGAAUCCgccccgacggucgggGCCCUCGGc -3'
miRNA:   3'- -CGGA-GCGUCU---------ACUUGGGa--------------UGGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 2724 0.7 0.757764
Target:  5'- aGCCUgGUggcccgGGGUGGccACCCUGCgCUUGGg -3'
miRNA:   3'- -CGGAgCG------UCUACU--UGGGAUGgGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 2979 0.69 0.82118
Target:  5'- gGCCUucUGCGGcUGGGCUgCUGCCCcCGGg -3'
miRNA:   3'- -CGGA--GCGUCuACUUGG-GAUGGGaGCC- -5'
2657 3' -55.1 NC_001491.2 + 3779 0.67 0.909326
Target:  5'- cGCUUCGCGGAcgcgGAccgagggcGCCggGgCCUCGGg -3'
miRNA:   3'- -CGGAGCGUCUa---CU--------UGGgaUgGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 10537 0.66 0.936534
Target:  5'- cGCC-CGCGGccGcaagcuCCCUcuccagcuGCCCUCGGc -3'
miRNA:   3'- -CGGaGCGUCuaCuu----GGGA--------UGGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 11947 0.66 0.950027
Target:  5'- aCCUCGCuGGGUGcgacggggaaguAGCCCUGgggaCCUUGGc -3'
miRNA:   3'- cGGAGCG-UCUAC------------UUGGGAUg---GGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 21521 0.71 0.718908
Target:  5'- cGCUUCGCAGGUGGGCaa---CUUCGGg -3'
miRNA:   3'- -CGGAGCGUCUACUUGggaugGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 24781 0.66 0.945762
Target:  5'- cGUgaCGUGGAUgGAACgCCUACUCUgGGg -3'
miRNA:   3'- -CGgaGCGUCUA-CUUG-GGAUGGGAgCC- -5'
2657 3' -55.1 NC_001491.2 + 33325 0.66 0.936534
Target:  5'- cGCCUaCGCGGAcauGgCCUACCCgagagacgaggCGGg -3'
miRNA:   3'- -CGGA-GCGUCUacuUgGGAUGGGa----------GCC- -5'
2657 3' -55.1 NC_001491.2 + 33789 0.66 0.941265
Target:  5'- uCCUCGgGGAcucUG-ACCCUACCCa--- -3'
miRNA:   3'- cGGAGCgUCU---ACuUGGGAUGGGagcc -5'
2657 3' -55.1 NC_001491.2 + 35664 0.71 0.708987
Target:  5'- gGCCggCGCGGcgcugGGGCCgUggaGCCCUCGGa -3'
miRNA:   3'- -CGGa-GCGUCua---CUUGGgA---UGGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 35807 0.67 0.90255
Target:  5'- aGCCcCGCGGGUcgacuggGAGCCCggguucgGCUCUCGc -3'
miRNA:   3'- -CGGaGCGUCUA-------CUUGGGa------UGGGAGCc -5'
2657 3' -55.1 NC_001491.2 + 51306 0.66 0.950027
Target:  5'- cGCCUuCGCGGcucUGccGGCCCcGCUCUUGGc -3'
miRNA:   3'- -CGGA-GCGUCu--AC--UUGGGaUGGGAGCC- -5'
2657 3' -55.1 NC_001491.2 + 55715 0.75 0.527433
Target:  5'- aGCUgUCGCAGAaGAGCCucugCUACCCUCGu -3'
miRNA:   3'- -CGG-AGCGUCUaCUUGG----GAUGGGAGCc -5'
2657 3' -55.1 NC_001491.2 + 56867 0.68 0.890188
Target:  5'- gGCCcgCGCAGA--AACCCacACCCUUGa -3'
miRNA:   3'- -CGGa-GCGUCUacUUGGGa-UGGGAGCc -5'
2657 3' -55.1 NC_001491.2 + 59178 0.77 0.398624
Target:  5'- cGCCUCGCGGugGUGAGCCCcggcgaUACUCUCa- -3'
miRNA:   3'- -CGGAGCGUC--UACUUGGG------AUGGGAGcc -5'
2657 3' -55.1 NC_001491.2 + 81450 0.66 0.945762
Target:  5'- uGCCaaaGUAGcUGAuGCCCUggcgGCCCUCGa -3'
miRNA:   3'- -CGGag-CGUCuACU-UGGGA----UGGGAGCc -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.