miRNA display CGI


Results 1 - 20 of 145 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
9158 3' -54.6 NC_002512.2 + 75942 1.09 0.007034
Target:  5'- aGAACCCGACGUCCCCGAACGUUCUCGa -3'
miRNA:   3'- -CUUGGGCUGCAGGGGCUUGCAAGAGC- -5'
9158 3' -54.6 NC_002512.2 + 58157 0.82 0.321139
Target:  5'- cGAGCUCGACGU-CCCGAuCGUUCUCGc -3'
miRNA:   3'- -CUUGGGCUGCAgGGGCUuGCAAGAGC- -5'
9158 3' -54.6 NC_002512.2 + 13467 0.81 0.373449
Target:  5'- cGAGCCUGGCGUCCCCGGACcugCUgCGg -3'
miRNA:   3'- -CUUGGGCUGCAGGGGCUUGcaaGA-GC- -5'
9158 3' -54.6 NC_002512.2 + 184198 0.76 0.619405
Target:  5'- cGGGCCUGAC-UCCCCGGACcgcggGUUCUCu -3'
miRNA:   3'- -CUUGGGCUGcAGGGGCUUG-----CAAGAGc -5'
9158 3' -54.6 NC_002512.2 + 101708 0.75 0.649061
Target:  5'- cGGCCCGcucggcgaccuCGUCCCCGGGCucGUUCUCGu -3'
miRNA:   3'- cUUGGGCu----------GCAGGGGCUUG--CAAGAGC- -5'
9158 3' -54.6 NC_002512.2 + 3103 0.75 0.678603
Target:  5'- aGACCaCGGCGUCgCCCGAgACGUcCUCGc -3'
miRNA:   3'- cUUGG-GCUGCAG-GGGCU-UGCAaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 213682 0.75 0.688389
Target:  5'- gGAGCCCGGCGUCgCCCGcg-GUcCUCGa -3'
miRNA:   3'- -CUUGGGCUGCAG-GGGCuugCAaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 112853 0.75 0.692293
Target:  5'- cAGCCCGaacagcucgauggccGCGUCCuCCGGcccgGCGUUCUCGu -3'
miRNA:   3'- cUUGGGC---------------UGCAGG-GGCU----UGCAAGAGC- -5'
9158 3' -54.6 NC_002512.2 + 140887 0.74 0.721289
Target:  5'- -uGCCCGACGUCCCCGcgcuccgggucgacGACGgggacgacgcggcggCUCGg -3'
miRNA:   3'- cuUGGGCUGCAGGGGC--------------UUGCaa-------------GAGC- -5'
9158 3' -54.6 NC_002512.2 + 124268 0.73 0.762592
Target:  5'- -cACCCGACGgcggcgucggaCCCGGGCGUgcggCUCGa -3'
miRNA:   3'- cuUGGGCUGCag---------GGGCUUGCAa---GAGC- -5'
9158 3' -54.6 NC_002512.2 + 103496 0.73 0.773523
Target:  5'- -cGCCCGGgG-CCCCGGGCGcUCUCc -3'
miRNA:   3'- cuUGGGCUgCaGGGGCUUGCaAGAGc -5'
9158 3' -54.6 NC_002512.2 + 134786 0.73 0.782503
Target:  5'- -cACCCG-CGUCCCCGGgcccgACGccggUCUCGc -3'
miRNA:   3'- cuUGGGCuGCAGGGGCU-----UGCa---AGAGC- -5'
9158 3' -54.6 NC_002512.2 + 74294 0.73 0.782503
Target:  5'- --cCCCGugGUCCUCGAcggaggacaggACGUcCUCGg -3'
miRNA:   3'- cuuGGGCugCAGGGGCU-----------UGCAaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 6099 0.72 0.800078
Target:  5'- ---gCCGACGUCCCCGGcgACGUccgguccCUCGa -3'
miRNA:   3'- cuugGGCUGCAGGGGCU--UGCAa------GAGC- -5'
9158 3' -54.6 NC_002512.2 + 101484 0.72 0.808657
Target:  5'- aGACCCccCGUCCCCGGACGagucgCUCu -3'
miRNA:   3'- cUUGGGcuGCAGGGGCUUGCaa---GAGc -5'
9158 3' -54.6 NC_002512.2 + 126425 0.72 0.825358
Target:  5'- aGACCCGagccGCGUCCUCGGACccgcgCUCGg -3'
miRNA:   3'- cUUGGGC----UGCAGGGGCUUGcaa--GAGC- -5'
9158 3' -54.6 NC_002512.2 + 3710 0.72 0.825358
Target:  5'- cGACCCGGuCGcUCCCCGGGuCGgaCUCGu -3'
miRNA:   3'- cUUGGGCU-GC-AGGGGCUU-GCaaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 132610 0.72 0.833466
Target:  5'- -cGCUCGGCcUCCCCGAuGCGUUCcCGg -3'
miRNA:   3'- cuUGGGCUGcAGGGGCU-UGCAAGaGC- -5'
9158 3' -54.6 NC_002512.2 + 205661 0.71 0.841403
Target:  5'- cGGGCCCGACG-CCUCGGACag-CUCc -3'
miRNA:   3'- -CUUGGGCUGCaGGGGCUUGcaaGAGc -5'
9158 3' -54.6 NC_002512.2 + 140278 0.71 0.841403
Target:  5'- -cGCCCGAgCGcCCCgCGGACGUUCcCGc -3'
miRNA:   3'- cuUGGGCU-GCaGGG-GCUUGCAAGaGC- -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.