miRNA display CGI


Results 1 - 20 of 52 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
26025 3' -52.6 NC_005342.2 + 728 0.71 0.545518
Target:  5'- uCGuuCAGCGCGGCagUCGccgccGGCGCGu -3'
miRNA:   3'- -GCuuGUUGCGCCGa-AGCaaa--CCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 824 0.66 0.843877
Target:  5'- uCGcuCGGCGCGGgugUUUCGacgacUGGCGCGc -3'
miRNA:   3'- -GCuuGUUGCGCC---GAAGCaa---ACCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 1471 0.69 0.668477
Target:  5'- cCGAGCAGCGCGGCggacacUUCGacgccGaGUGCGu -3'
miRNA:   3'- -GCUUGUUGCGCCG------AAGCaaa--C-CGCGC- -5'
26025 3' -52.6 NC_005342.2 + 1820 0.66 0.843877
Target:  5'- aGAGCGugcagGC-CGGCgUCGUgcgguucUGGCGCGc -3'
miRNA:   3'- gCUUGU-----UGcGCCGaAGCAa------ACCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 2402 0.66 0.825686
Target:  5'- -cGGCAACGUGcCUUgGUacGGCGCGg -3'
miRNA:   3'- gcUUGUUGCGCcGAAgCAaaCCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 2466 0.67 0.796831
Target:  5'- aCGAuCGACGCcGCcUCGaggucgGGCGCGa -3'
miRNA:   3'- -GCUuGUUGCGcCGaAGCaaa---CCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 3022 0.73 0.411304
Target:  5'- cCGAcaagcACGugGCcgGGCUUCGU--GGCGCGg -3'
miRNA:   3'- -GCU-----UGUugCG--CCGAAGCAaaCCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 3241 0.69 0.690783
Target:  5'- cCGGACAGCGCgccguGGUagaUCGUaUGGUGCu -3'
miRNA:   3'- -GCUUGUUGCG-----CCGa--AGCAaACCGCGc -5'
26025 3' -52.6 NC_005342.2 + 3396 0.66 0.843877
Target:  5'- aGAACAGCuGCGGCgcggUCGccaccuggUUGaccuGCGCGu -3'
miRNA:   3'- gCUUGUUG-CGCCGa---AGCa-------AAC----CGCGC- -5'
26025 3' -52.6 NC_005342.2 + 5139 0.65 0.850028
Target:  5'- uCGAGCAGCGCaGCUUgCGccugaUUgaacaucgccugcaGGCGCGg -3'
miRNA:   3'- -GCUUGUUGCGcCGAA-GCa----AA--------------CCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 5758 0.67 0.76636
Target:  5'- gCGcauCAGCGCGGCUauuuUCGguggucaUGGUGUGg -3'
miRNA:   3'- -GCuu-GUUGCGCCGA----AGCaa-----ACCGCGC- -5'
26025 3' -52.6 NC_005342.2 + 8616 0.66 0.843877
Target:  5'- uCGAGCucgGCGCGGCgcccggcuugcUCGUgacGGUGCc -3'
miRNA:   3'- -GCUUGu--UGCGCCGa----------AGCAaa-CCGCGc -5'
26025 3' -52.6 NC_005342.2 + 8894 0.84 0.091118
Target:  5'- uCGAugcGCGACGCGGCUUCGUUcgcgccGGCGCu -3'
miRNA:   3'- -GCU---UGUUGCGCCGAAGCAAa-----CCGCGc -5'
26025 3' -52.6 NC_005342.2 + 9375 0.76 0.277314
Target:  5'- gCGGACGG-GCGGCgUUCGUaUGGCGCc -3'
miRNA:   3'- -GCUUGUUgCGCCG-AAGCAaACCGCGc -5'
26025 3' -52.6 NC_005342.2 + 9633 0.66 0.833982
Target:  5'- aCGGGCAGCGgcgcgccCGGCUguagcUGGCGCu -3'
miRNA:   3'- -GCUUGUUGC-------GCCGAagcaaACCGCGc -5'
26025 3' -52.6 NC_005342.2 + 10010 0.66 0.843877
Target:  5'- aCGAACGGCGCGGCgcgcuugcUCGacucGGgGUa -3'
miRNA:   3'- -GCUUGUUGCGCCGa-------AGCaaa-CCgCGc -5'
26025 3' -52.6 NC_005342.2 + 10322 0.67 0.776678
Target:  5'- --cACGACGCaGGCa--GUUUGGCGUc -3'
miRNA:   3'- gcuUGUUGCG-CCGaagCAAACCGCGc -5'
26025 3' -52.6 NC_005342.2 + 11343 0.66 0.805671
Target:  5'- cCGAGCAuaGCGCGuGC--CGUccaguaaagccaaUUGGCGCa -3'
miRNA:   3'- -GCUUGU--UGCGC-CGaaGCA-------------AACCGCGc -5'
26025 3' -52.6 NC_005342.2 + 11675 0.67 0.786839
Target:  5'- uCGAcGCAGCGCcgGGCggCGUgcUGGCGUc -3'
miRNA:   3'- -GCU-UGUUGCG--CCGaaGCAa-ACCGCGc -5'
26025 3' -52.6 NC_005342.2 + 11783 0.67 0.755898
Target:  5'- aGuACGACGCGGCcaucagCGcgacGGCGCGc -3'
miRNA:   3'- gCuUGUUGCGCCGaa----GCaaa-CCGCGC- -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.