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 + 39791 0.66 0.781066
Target:  5'- --gCCUCugGUCGGCgcucaGCCUCGuaguAGCUGg -3'
miRNA:   3'- cuaGGAG--UAGCUGg----UGGAGCu---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 + 8415 0.66 0.781066
Target:  5'- cGAUCCU-GUCGACCAagaaCUCGAucaccgagucacGGCg- -3'
miRNA:   3'- -CUAGGAgUAGCUGGUg---GAGCU------------UCGac -5'
7242 3' -53.3 NC_001900.1 + 33899 0.66 0.781066
Target:  5'- --aCCUCGgaaUCG-CCGcCCUCGAAGCc- -3'
miRNA:   3'- cuaGGAGU---AGCuGGU-GGAGCUUCGac -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 + 36665 0.66 0.770779
Target:  5'- -cUCCUCGgcgaaGACCucacggACCUCGcugGAGCUGa -3'
miRNA:   3'- cuAGGAGUag---CUGG------UGGAGC---UUCGAC- -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 + 28709 0.66 0.760341
Target:  5'- aGUCCUCcUUGACCACC-CGGuAGUg- -3'
miRNA:   3'- cUAGGAGuAGCUGGUGGaGCU-UCGac -5'
7242 3' -53.3 NC_001900.1 + 26658 0.66 0.760341
Target:  5'- aGGUUCUCGUCGugCGagUUCGAuaccuGGCUGu -3'
miRNA:   3'- -CUAGGAGUAGCugGUg-GAGCU-----UCGAC- -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 + 48956 0.67 0.739064
Target:  5'- uGUCCUCGguugcugggcaUCGuguGCC-CCUCGAGGCa- -3'
miRNA:   3'- cUAGGAGU-----------AGC---UGGuGGAGCUUCGac -5'
7242 3' -53.3 NC_001900.1 + 26946 0.67 0.728248
Target:  5'- -cUCCUUcUCGGcCCACCUCGcuGCg- -3'
miRNA:   3'- cuAGGAGuAGCU-GGUGGAGCuuCGac -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 + 3152 0.67 0.706327
Target:  5'- aGAUCCUCG-CGGCCA--UCGAAGUcuUGa -3'
miRNA:   3'- -CUAGGAGUaGCUGGUggAGCUUCG--AC- -5'
7242 3' -53.3 NC_001900.1 + 20357 0.67 0.695246
Target:  5'- cGUCUUCuUCGACgGCCa-GGAGCUGc -3'
miRNA:   3'- cUAGGAGuAGCUGgUGGagCUUCGAC- -5'
7242 3' -53.3 NC_001900.1 + 23901 0.68 0.6841
Target:  5'- --gCCUCGUaccCGGCCcgaGCCUCugcGAGGCUGg -3'
miRNA:   3'- cuaGGAGUA---GCUGG---UGGAG---CUUCGAC- -5'
7242 3' -53.3 NC_001900.1 + 45370 0.68 0.6841
Target:  5'- -cUCCaCGUCGACC-CCgaGGAGCUGg -3'
miRNA:   3'- cuAGGaGUAGCUGGuGGagCUUCGAC- -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 + 44656 0.68 0.661664
Target:  5'- -cUCC-CAuaccUCGACCGCCUCGGcgacAGCg- -3'
miRNA:   3'- cuAGGaGU----AGCUGGUGGAGCU----UCGac -5'
7242 3' -53.3 NC_001900.1 + 7024 0.68 0.650397
Target:  5'- aAUCCUCGagGACCGgCUCGAAaacCUGg -3'
miRNA:   3'- cUAGGAGUagCUGGUgGAGCUUc--GAC- -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.