miRNA display CGI


Results 1 - 16 of 16 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
125 5' -54.7 AC_000006.1 + 15028 0.66 0.62321
Target:  5'- gACAGguGcGGCGACG-GGCGU-CAGu -3'
miRNA:   3'- -UGUCguCcCUGUUGCuCCGCAaGUCc -5'
125 5' -54.7 AC_000006.1 + 10487 0.66 0.62321
Target:  5'- cGCGGCAGaacccgguucgcGGACGGcCGcGGCGagCGGGa -3'
miRNA:   3'- -UGUCGUC------------CCUGUU-GCuCCGCaaGUCC- -5'
125 5' -54.7 AC_000006.1 + 9136 0.66 0.589093
Target:  5'- -uGGCGGGGcccgACGACGAcGGCGacgcacCGGGa -3'
miRNA:   3'- ugUCGUCCC----UGUUGCU-CCGCaa----GUCC- -5'
125 5' -54.7 AC_000006.1 + 24260 0.67 0.576658
Target:  5'- uCAGC-GGGACAAaguCGgaggggaAGGCGUUgCAGGu -3'
miRNA:   3'- uGUCGuCCCUGUU---GC-------UCCGCAA-GUCC- -5'
125 5' -54.7 AC_000006.1 + 17574 0.67 0.566526
Target:  5'- -gGGCGuGGGugGugGAGGCaggUCAaGGg -3'
miRNA:   3'- ugUCGU-CCCugUugCUCCGca-AGU-CC- -5'
125 5' -54.7 AC_000006.1 + 16624 0.67 0.533125
Target:  5'- gGCGGCGGGuGGCGgugcgGCGGcGGCGUUUgcuGGc -3'
miRNA:   3'- -UGUCGUCC-CUGU-----UGCU-CCGCAAGu--CC- -5'
125 5' -54.7 AC_000006.1 + 7048 0.68 0.522143
Target:  5'- uGCGGCcuuGcGGA--GCGAGGUGUgcgUCAGGg -3'
miRNA:   3'- -UGUCGu--C-CCUguUGCUCCGCA---AGUCC- -5'
125 5' -54.7 AC_000006.1 + 13320 0.69 0.428031
Target:  5'- gGCAGCGgggccugguguGGGACGACGAGGac-UCGGc -3'
miRNA:   3'- -UGUCGU-----------CCCUGUUGCUCCgcaAGUCc -5'
125 5' -54.7 AC_000006.1 + 24962 0.7 0.398939
Target:  5'- aGCGGCAGGGcuacgaauCAugGAGGCccacaaagCGGGa -3'
miRNA:   3'- -UGUCGUCCCu-------GUugCUCCGcaa-----GUCC- -5'
125 5' -54.7 AC_000006.1 + 4075 0.71 0.353362
Target:  5'- cAUAGCAGGGGCG-CuGGGCGUggugCuGGa -3'
miRNA:   3'- -UGUCGUCCCUGUuGcUCCGCAa---GuCC- -5'
125 5' -54.7 AC_000006.1 + 13231 0.72 0.303702
Target:  5'- cGCGGCGGcugcaGCAGCGAGuCGUUCAGGu -3'
miRNA:   3'- -UGUCGUCcc---UGUUGCUCcGCAAGUCC- -5'
125 5' -54.7 AC_000006.1 + 10840 0.72 0.291398
Target:  5'- cGCAGCGGGGAgGagcccgaggagaugcGCGAcugccgguuucgGGCGggCAGGg -3'
miRNA:   3'- -UGUCGUCCCUgU---------------UGCU------------CCGCaaGUCC- -5'
125 5' -54.7 AC_000006.1 + 8075 0.74 0.233174
Target:  5'- cGCGGCGGGGGCGgagagcgaagACGAgGGCGcgCAGu -3'
miRNA:   3'- -UGUCGUCCCUGU----------UGCU-CCGCaaGUCc -5'
125 5' -54.7 AC_000006.1 + 8357 0.74 0.219035
Target:  5'- -gGGCAGGGGCGgcagaggcacgucgGCGuGGCGcUCGGGc -3'
miRNA:   3'- ugUCGUCCCUGU--------------UGCuCCGCaAGUCC- -5'
125 5' -54.7 AC_000006.1 + 10075 0.8 0.085809
Target:  5'- cCGGCAGcGGugGugGAGGCGcgCGGGa -3'
miRNA:   3'- uGUCGUC-CCugUugCUCCGCaaGUCC- -5'
125 5' -54.7 AC_000006.1 + 11193 1.11 0.000461
Target:  5'- cACAGCAGGGACAACGAGGCGUUCAGGg -3'
miRNA:   3'- -UGUCGUCCCUGUUGCUCCGCAAGUCC- -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.