miRNA display CGI


Results 1 - 20 of 29 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
7242 3' -53.3 NC_001900.1 + 7024 0.68 0.650397
Target:  5'- aAUCCUCGagGACCGgCUCGAAaacCUGg -3'
miRNA:   3'- cUAGGAGUagCUGGUgGAGCUUc--GAC- -5'
7242 3' -53.3 NC_001900.1 + 24549 0.69 0.576088
Target:  5'- cAUCCcggcacaggccgaguUCAUCGACgugauucuCCUCGGAGCUGg -3'
miRNA:   3'- cUAGG---------------AGUAGCUGgu------GGAGCUUCGAC- -5'
7242 3' -53.3 NC_001900.1 + 12770 0.7 0.560505
Target:  5'- cAUCCUCAgCGACCACgUCGuggaGGGCa- -3'
miRNA:   3'- cUAGGAGUaGCUGGUGgAGC----UUCGac -5'
7242 3' -53.3 NC_001900.1 + 12937 0.7 0.538455
Target:  5'- --aCCUCGUCGcaguCCGugUCGAGGCUGa -3'
miRNA:   3'- cuaGGAGUAGCu---GGUggAGCUUCGAC- -5'
7242 3' -53.3 NC_001900.1 + 22699 0.74 0.317271
Target:  5'- -cUCCUCcgCGAgCACCUgcUGAAGCUGc -3'
miRNA:   3'- cuAGGAGuaGCUgGUGGA--GCUUCGAC- -5'
7242 3' -53.3 NC_001900.1 + 36665 0.66 0.770779
Target:  5'- -cUCCUCGgcgaaGACCucacggACCUCGcugGAGCUGa -3'
miRNA:   3'- cuAGGAGUag---CUGG------UGGAGC---UUCGAC- -5'
7242 3' -53.3 NC_001900.1 + 3973 0.68 0.639112
Target:  5'- --gUCUCA-CGGgCACCUCGAAGCc- -3'
miRNA:   3'- cuaGGAGUaGCUgGUGGAGCUUCGac -5'
7242 3' -53.3 NC_001900.1 + 8415 0.66 0.781066
Target:  5'- cGAUCCU-GUCGACCAagaaCUCGAucaccgagucacGGCg- -3'
miRNA:   3'- -CUAGGAgUAGCUGGUg---GAGCU------------UCGac -5'
7242 3' -53.3 NC_001900.1 + 44329 0.66 0.770779
Target:  5'- -cUCCcCGUCGACCACgaCGAcGGCg- -3'
miRNA:   3'- cuAGGaGUAGCUGGUGgaGCU-UCGac -5'
7242 3' -53.3 NC_001900.1 + 48956 0.67 0.739064
Target:  5'- uGUCCUCGguugcugggcaUCGuguGCC-CCUCGAGGCa- -3'
miRNA:   3'- cUAGGAGU-----------AGC---UGGuGGAGCUUCGac -5'
7242 3' -53.3 NC_001900.1 + 44656 0.68 0.661664
Target:  5'- -cUCC-CAuaccUCGACCGCCUCGGcgacAGCg- -3'
miRNA:   3'- cuAGGaGU----AGCUGGUGGAGCU----UCGac -5'
7242 3' -53.3 NC_001900.1 + 2201 0.67 0.728248
Target:  5'- --gCCUC-UCGGCCACCaagUGGgguGGCUGg -3'
miRNA:   3'- cuaGGAGuAGCUGGUGGa--GCU---UCGAC- -5'
7242 3' -53.3 NC_001900.1 + 41115 0.66 0.781066
Target:  5'- --aCCUUGgucUCGAUCACC-CGAGGCUu -3'
miRNA:   3'- cuaGGAGU---AGCUGGUGGaGCUUCGAc -5'
7242 3' -53.3 NC_001900.1 + 33545 0.66 0.781066
Target:  5'- aGAUCCUCGUUGAuCCACgagaacgGAAGCUc -3'
miRNA:   3'- -CUAGGAGUAGCU-GGUGgag----CUUCGAc -5'
7242 3' -53.3 NC_001900.1 + 41105 0.66 0.749765
Target:  5'- --gCCUCGaugCGGCCACCggccgCGGAGUa- -3'
miRNA:   3'- cuaGGAGUa--GCUGGUGGa----GCUUCGac -5'
7242 3' -53.3 NC_001900.1 + 32804 0.72 0.453833
Target:  5'- cGGUCCUCAUC--CCaACCUCGGuacuGCUGa -3'
miRNA:   3'- -CUAGGAGUAGcuGG-UGGAGCUu---CGAC- -5'
7242 3' -53.3 NC_001900.1 + 45305 0.71 0.499572
Target:  5'- --aCCUCAUCGAacgagcgccgcgaggUCACCUUG-AGCUGg -3'
miRNA:   3'- cuaGGAGUAGCU---------------GGUGGAGCuUCGAC- -5'
7242 3' -53.3 NC_001900.1 + 33232 0.68 0.639112
Target:  5'- uGUCCUCGaccuccUUGACgGCCUCGAccacGGCUu -3'
miRNA:   3'- cUAGGAGU------AGCUGgUGGAGCU----UCGAc -5'
7242 3' -53.3 NC_001900.1 + 27053 0.68 0.672903
Target:  5'- cGUCCUCAUCaGCCAgCUccCGGAGCc- -3'
miRNA:   3'- cUAGGAGUAGcUGGUgGA--GCUUCGac -5'
7242 3' -53.3 NC_001900.1 + 26946 0.67 0.728248
Target:  5'- -cUCCUUcUCGGcCCACCUCGcuGCg- -3'
miRNA:   3'- cuAGGAGuAGCU-GGUGGAGCuuCGac -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.