miRNA display CGI


Results 1 - 20 of 31 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
18537 3' -58.3 NC_004681.1 + 39094 0.66 0.652873
Target:  5'- gCCCugGUGgccaCCUGcGCGGGCAacaCCUUCc -3'
miRNA:   3'- -GGGugCAC----GGAUaCGCCUGUc--GGGAG- -5'
18537 3' -58.3 NC_004681.1 + 53143 0.66 0.652873
Target:  5'- gCCgCACGagGaCCUcgGCGGAguGCCUa- -3'
miRNA:   3'- -GG-GUGCa-C-GGAuaCGCCUguCGGGag -5'
18537 3' -58.3 NC_004681.1 + 44222 0.66 0.651818
Target:  5'- gCCCGCG-GCCUcgGgGGugAggcagguGCCUUUg -3'
miRNA:   3'- -GGGUGCaCGGAuaCgCCugU-------CGGGAG- -5'
18537 3' -58.3 NC_004681.1 + 46291 0.66 0.642313
Target:  5'- gUCUACGU-CCacgGCGGGCAGCCaUCc -3'
miRNA:   3'- -GGGUGCAcGGauaCGCCUGUCGGgAG- -5'
18537 3' -58.3 NC_004681.1 + 19949 0.66 0.642313
Target:  5'- gUCUugG-GCUcgGUGUaGGACAGCaCCUCg -3'
miRNA:   3'- -GGGugCaCGGa-UACG-CCUGUCG-GGAG- -5'
18537 3' -58.3 NC_004681.1 + 49433 0.66 0.642313
Target:  5'- gCCCGCGgcgccGCCgugGCGGACGGUg--- -3'
miRNA:   3'- -GGGUGCa----CGGauaCGCCUGUCGggag -5'
18537 3' -58.3 NC_004681.1 + 48485 0.66 0.630686
Target:  5'- aCUugGUuCCUgucugcaAUGCGGACAGUUCUUu -3'
miRNA:   3'- gGGugCAcGGA-------UACGCCUGUCGGGAG- -5'
18537 3' -58.3 NC_004681.1 + 554 0.66 0.610615
Target:  5'- cCCCACGaacucgGCCagGUuggacgcccaGCGGA-GGCCCUCg -3'
miRNA:   3'- -GGGUGCa-----CGGa-UA----------CGCCUgUCGGGAG- -5'
18537 3' -58.3 NC_004681.1 + 67310 0.67 0.600073
Target:  5'- aCCCGgGUGCgguUGCcGACAGCCUcaUCg -3'
miRNA:   3'- -GGGUgCACGgauACGcCUGUCGGG--AG- -5'
18537 3' -58.3 NC_004681.1 + 22272 0.67 0.579071
Target:  5'- cUCCGCGUGgCggcGUGGGC-GCCCUg -3'
miRNA:   3'- -GGGUGCACgGauaCGCCUGuCGGGAg -5'
18537 3' -58.3 NC_004681.1 + 1428 0.67 0.568627
Target:  5'- uCCCACG-GCU--UGa-GGCAGCCCUUg -3'
miRNA:   3'- -GGGUGCaCGGauACgcCUGUCGGGAG- -5'
18537 3' -58.3 NC_004681.1 + 6390 0.67 0.568627
Target:  5'- aCCGCGgcagGCCcAUGaucucGCGGCCCUCg -3'
miRNA:   3'- gGGUGCa---CGGaUACgcc--UGUCGGGAG- -5'
18537 3' -58.3 NC_004681.1 + 23678 0.67 0.567585
Target:  5'- uCCUACGcgcccGCCUccGCGGACauagaguGGCCCg- -3'
miRNA:   3'- -GGGUGCa----CGGAuaCGCCUG-------UCGGGag -5'
18537 3' -58.3 NC_004681.1 + 56128 0.67 0.558231
Target:  5'- cUCCACGgugaagGCg-AUGCGGAgGucGCCCUCc -3'
miRNA:   3'- -GGGUGCa-----CGgaUACGCCUgU--CGGGAG- -5'
18537 3' -58.3 NC_004681.1 + 19817 0.67 0.558231
Target:  5'- aCCGCGUGCUgc-GCGGugAcCCCg- -3'
miRNA:   3'- gGGUGCACGGauaCGCCugUcGGGag -5'
18537 3' -58.3 NC_004681.1 + 17936 0.67 0.555122
Target:  5'- cCCCGCaggugaGUGCCgaggGCGGcuccgugggccaccGCAGCCCa- -3'
miRNA:   3'- -GGGUG------CACGGaua-CGCC--------------UGUCGGGag -5'
18537 3' -58.3 NC_004681.1 + 28003 0.67 0.547889
Target:  5'- cCCCGCGUGCCgcuacUGGACGaguuggugccGCCCg- -3'
miRNA:   3'- -GGGUGCACGGauac-GCCUGU----------CGGGag -5'
18537 3' -58.3 NC_004681.1 + 33441 0.68 0.527396
Target:  5'- gCCAgCGUGa-UGUGCGGGCGgguGCCCUg -3'
miRNA:   3'- gGGU-GCACggAUACGCCUGU---CGGGAg -5'
18537 3' -58.3 NC_004681.1 + 59172 0.68 0.517255
Target:  5'- aCCUACGUcGCCaccUAUGUcacGGACGGCCUc- -3'
miRNA:   3'- -GGGUGCA-CGG---AUACG---CCUGUCGGGag -5'
18537 3' -58.3 NC_004681.1 + 3133 0.68 0.507194
Target:  5'- cCCUugGcGCCgcggGUGCGGGCAuuGCCgCUg -3'
miRNA:   3'- -GGGugCaCGGa---UACGCCUGU--CGG-GAg -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.