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 + 65916 0.7 0.904186
Target:  5'- uGAGCUCGAUGUCCUucagguUGGugACGUUCUUGa -3'
miRNA:   3'- -CUUGGGCUGCAGGG------GCU--UGCAAGAGC- -5'
9158 3' -54.6 NC_002512.2 + 351 0.71 0.878308
Target:  5'- -cGCCCGGC-UCCCCG-GCGuUUCUCc -3'
miRNA:   3'- cuUGGGCUGcAGGGGCuUGC-AAGAGc -5'
9158 3' -54.6 NC_002512.2 + 229754 0.71 0.878308
Target:  5'- -cGCCCGGC-UCCCCG-GCGuUUCUCc -3'
miRNA:   3'- cuUGGGCUGcAGGGGCuUGC-AAGAGc -5'
9158 3' -54.6 NC_002512.2 + 5685 0.71 0.878308
Target:  5'- --cCCCGGCGUCCCCGcgucCGUgugugugugUCUCu -3'
miRNA:   3'- cuuGGGCUGCAGGGGCuu--GCA---------AGAGc -5'
9158 3' -54.6 NC_002512.2 + 52694 0.7 0.885095
Target:  5'- uGGAUCCccagacGACGUCCCCGAACGacg-CGg -3'
miRNA:   3'- -CUUGGG------CUGCAGGGGCUUGCaagaGC- -5'
9158 3' -54.6 NC_002512.2 + 116746 0.7 0.885095
Target:  5'- cGAGgCCGGCG-CCCCGcGCGcgUCUCc -3'
miRNA:   3'- -CUUgGGCUGCaGGGGCuUGCa-AGAGc -5'
9158 3' -54.6 NC_002512.2 + 134091 0.7 0.891672
Target:  5'- cGGAUCCG-CGUCCCCG-GCGccuaccgCUCGg -3'
miRNA:   3'- -CUUGGGCuGCAGGGGCuUGCaa-----GAGC- -5'
9158 3' -54.6 NC_002512.2 + 43522 0.7 0.898037
Target:  5'- aGACacaUGACGUCCCCGGccccgaagACGUUgUCGc -3'
miRNA:   3'- cUUGg--GCUGCAGGGGCU--------UGCAAgAGC- -5'
9158 3' -54.6 NC_002512.2 + 44687 0.7 0.904186
Target:  5'- -cACCgCGGCGUCgaCCGccgccGCGUUCUCGg -3'
miRNA:   3'- cuUGG-GCUGCAGg-GGCu----UGCAAGAGC- -5'
9158 3' -54.6 NC_002512.2 + 79847 0.71 0.864126
Target:  5'- --cCCCGuCGUCCCCGGcccccuCGUcCUCGg -3'
miRNA:   3'- cuuGGGCuGCAGGGGCUu-----GCAaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 130630 0.71 0.856739
Target:  5'- --gUCCGGCGUCCUCGgGGCGUccCUCGa -3'
miRNA:   3'- cuuGGGCUGCAGGGGC-UUGCAa-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 + 13467 0.81 0.373449
Target:  5'- cGAGCCUGGCGUCCCCGGACcugCUgCGg -3'
miRNA:   3'- -CUUGGGCUGCAGGGGCUUGcaaGA-GC- -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 + 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 + 103496 0.73 0.773523
Target:  5'- -cGCCCGGgG-CCCCGGGCGcUCUCc -3'
miRNA:   3'- cuUGGGCUgCaGGGGCUUGCaAGAGc -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 + 126425 0.72 0.825358
Target:  5'- aGACCCGagccGCGUCCUCGGACccgcgCUCGg -3'
miRNA:   3'- cUUGGGC----UGCAGGGGCUUGcaa--GAGC- -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.