miRNA display CGI


Results 1 - 20 of 77 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
26258 3' -51.5 NC_005345.2 + 46908 1.14 0.001064
Target:  5'- gCGCAGCUGAUCAAGGACAUCGAGACCa -3'
miRNA:   3'- -GCGUCGACUAGUUCCUGUAGCUCUGG- -5'
26258 3' -51.5 NC_005345.2 + 31834 0.84 0.107797
Target:  5'- gGCAGCUGGUCAAGGACGgguUCGcccguccggccgacaAGACCc -3'
miRNA:   3'- gCGUCGACUAGUUCCUGU---AGC---------------UCUGG- -5'
26258 3' -51.5 NC_005345.2 + 14885 0.8 0.19381
Target:  5'- gCGCAGCcGGUCAAGGGuCAggUCGAGgACCg -3'
miRNA:   3'- -GCGUCGaCUAGUUCCU-GU--AGCUC-UGG- -5'
26258 3' -51.5 NC_005345.2 + 14964 0.8 0.218686
Target:  5'- cCGCGGCUGAUCAgucggucggggccccGGGcCAcuccUCGGGGCCg -3'
miRNA:   3'- -GCGUCGACUAGU---------------UCCuGU----AGCUCUGG- -5'
26258 3' -51.5 NC_005345.2 + 3281 0.79 0.247558
Target:  5'- gCGCAGCUGcgugccguccacGUCGAGGGCGUcggCGAGugCu -3'
miRNA:   3'- -GCGUCGAC------------UAGUUCCUGUA---GCUCugG- -5'
26258 3' -51.5 NC_005345.2 + 4509 0.76 0.346151
Target:  5'- cCGCAGCaGGUCGAGGACGUau-GACg -3'
miRNA:   3'- -GCGUCGaCUAGUUCCUGUAgcuCUGg -5'
26258 3' -51.5 NC_005345.2 + 35865 0.75 0.390911
Target:  5'- gGCGGg-GGUCGGGGGCGUCGucGCCg -3'
miRNA:   3'- gCGUCgaCUAGUUCCUGUAGCucUGG- -5'
26258 3' -51.5 NC_005345.2 + 10639 0.75 0.400305
Target:  5'- aGCAGCacgcgUGAcUCAGGGACcgCG-GACCg -3'
miRNA:   3'- gCGUCG-----ACU-AGUUCCUGuaGCuCUGG- -5'
26258 3' -51.5 NC_005345.2 + 33910 0.74 0.436284
Target:  5'- gGCAGCUGAuccguacgggcaugUCAAGGACG-CGAagcaggcguucGACCu -3'
miRNA:   3'- gCGUCGACU--------------AGUUCCUGUaGCU-----------CUGG- -5'
26258 3' -51.5 NC_005345.2 + 32997 0.74 0.449361
Target:  5'- gGCGGCcgGGguggCGGGGGCGUCGAcGAUCg -3'
miRNA:   3'- gCGUCGa-CUa---GUUCCUGUAGCU-CUGG- -5'
26258 3' -51.5 NC_005345.2 + 34672 0.73 0.469893
Target:  5'- aGuCGGCguaGUCGAGGGCGUCGGGgauGCCg -3'
miRNA:   3'- gC-GUCGac-UAGUUCCUGUAGCUC---UGG- -5'
26258 3' -51.5 NC_005345.2 + 41117 0.73 0.501555
Target:  5'- uGCAGCUGcgCGAGGucgagccCGUCGAGcucgugaaACCg -3'
miRNA:   3'- gCGUCGACuaGUUCCu------GUAGCUC--------UGG- -5'
26258 3' -51.5 NC_005345.2 + 12550 0.72 0.534118
Target:  5'- gCGCAgcGCUGG-CAGGuGGCAUCGuGACUg -3'
miRNA:   3'- -GCGU--CGACUaGUUC-CUGUAGCuCUGG- -5'
26258 3' -51.5 NC_005345.2 + 3791 0.72 0.556238
Target:  5'- aCGUGGC-GAUCAcgucgacGGGCAgaUCGAGGCCg -3'
miRNA:   3'- -GCGUCGaCUAGUu------CCUGU--AGCUCUGG- -5'
26258 3' -51.5 NC_005345.2 + 26124 0.72 0.57188
Target:  5'- uGCAGCUGGUCGAGuucgcccggaugcccGACcUCGgcgaGGACCc -3'
miRNA:   3'- gCGUCGACUAGUUC---------------CUGuAGC----UCUGG- -5'
26258 3' -51.5 NC_005345.2 + 13036 0.72 0.578616
Target:  5'- uGCGGCgaccgGAUCAccggcAGcGGCAUCGuguGGACCg -3'
miRNA:   3'- gCGUCGa----CUAGU-----UC-CUGUAGC---UCUGG- -5'
26258 3' -51.5 NC_005345.2 + 40179 0.71 0.594396
Target:  5'- gCGCAGCUgcgGAUCGAGGccggcgugcagcucgGCAgcuacgUCGAGACg -3'
miRNA:   3'- -GCGUCGA---CUAGUUCC---------------UGU------AGCUCUGg -5'
26258 3' -51.5 NC_005345.2 + 14604 0.71 0.612511
Target:  5'- aGCGGCUccgGAUCGacGGGuACGcccgCGAGGCCg -3'
miRNA:   3'- gCGUCGA---CUAGU--UCC-UGUa---GCUCUGG- -5'
26258 3' -51.5 NC_005345.2 + 29645 0.71 0.612511
Target:  5'- gGCGGgaGAUCGAGGGagaCGGGGCg -3'
miRNA:   3'- gCGUCgaCUAGUUCCUguaGCUCUGg -5'
26258 3' -51.5 NC_005345.2 + 35329 0.71 0.617049
Target:  5'- gCGgGGCgGAcgcugucgacguaccUCAGGGGCGugUCGGGGCCg -3'
miRNA:   3'- -GCgUCGaCU---------------AGUUCCUGU--AGCUCUGG- -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.