miRNA display CGI


Results 1 - 20 of 55 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
19301 3' -56.1 NC_004685.1 + 2688 0.65 0.777119
Target:  5'- aCGCGGCCGCugucgccgccaucaCCGGCAccGUGAUgAUGGGg -3'
miRNA:   3'- -GUGCCGGUG--------------GGCUGUc-CACUA-UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 31854 0.69 0.581768
Target:  5'- -uCGGCCACCUGAagcuggauGGGUGcgGCGGu -3'
miRNA:   3'- guGCCGGUGGGCUg-------UCCACuaUGUCc -5'
19301 3' -56.1 NC_004685.1 + 2874 0.69 0.571193
Target:  5'- cCGCgGGCUgcuacgGCCCGACGGGUGAccuggugACGGu -3'
miRNA:   3'- -GUG-CCGG------UGGGCUGUCCACUa------UGUCc -5'
19301 3' -56.1 NC_004685.1 + 50929 1.1 0.001121
Target:  5'- cCACGGCCACCCGACAGGUGAUACAGGu -3'
miRNA:   3'- -GUGCCGGUGGGCUGUCCACUAUGUCC- -5'
19301 3' -56.1 NC_004685.1 + 36189 0.66 0.750382
Target:  5'- gCugGGCCACCacugugCGGCcuucaccGGUGGUGCccAGGu -3'
miRNA:   3'- -GugCCGGUGG------GCUGu------CCACUAUG--UCC- -5'
19301 3' -56.1 NC_004685.1 + 61734 0.66 0.747356
Target:  5'- uUAUGGCCAgCCGGaugaucgccgucgcCAGcGUGAUGgcCAGGa -3'
miRNA:   3'- -GUGCCGGUgGGCU--------------GUC-CACUAU--GUCC- -5'
19301 3' -56.1 NC_004685.1 + 25149 0.67 0.719713
Target:  5'- aGCGGCagGCCCagcgcguuGCGGGUGucagGCAGGu -3'
miRNA:   3'- gUGCCGg-UGGGc-------UGUCCACua--UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 63228 0.67 0.709312
Target:  5'- uGCGGCCGCcaggggugCCGGgcuguucgggcCAGGUGAUGCccuuGGc -3'
miRNA:   3'- gUGCCGGUG--------GGCU-----------GUCCACUAUGu---CC- -5'
19301 3' -56.1 NC_004685.1 + 39733 0.67 0.688306
Target:  5'- gCGCGGCCACCC-ACuccuuGGUGAcGguGa -3'
miRNA:   3'- -GUGCCGGUGGGcUGu----CCACUaUguCc -5'
19301 3' -56.1 NC_004685.1 + 10137 0.68 0.603029
Target:  5'- uGCuGCgACCCGACGGGcug-GCAGGc -3'
miRNA:   3'- gUGcCGgUGGGCUGUCCacuaUGUCC- -5'
19301 3' -56.1 NC_004685.1 + 68641 0.68 0.645764
Target:  5'- cCGCGGCUcaACaCCGACuGGUGcu-CGGGc -3'
miRNA:   3'- -GUGCCGG--UG-GGCUGuCCACuauGUCC- -5'
19301 3' -56.1 NC_004685.1 + 1092 0.67 0.688306
Target:  5'- aUugGGCCGgCCGGCuGGUGuu-CGGu -3'
miRNA:   3'- -GugCCGGUgGGCUGuCCACuauGUCc -5'
19301 3' -56.1 NC_004685.1 + 15136 0.66 0.770278
Target:  5'- gAUGGCCguGCUCaGguGGUGGUGCuGGg -3'
miRNA:   3'- gUGCCGG--UGGGcUguCCACUAUGuCC- -5'
19301 3' -56.1 NC_004685.1 + 21719 0.68 0.645764
Target:  5'- gCACGGguucgguuCCG-CCGACAGcGUGAUGCAcGGc -3'
miRNA:   3'- -GUGCC--------GGUgGGCUGUC-CACUAUGU-CC- -5'
19301 3' -56.1 NC_004685.1 + 31058 0.66 0.770278
Target:  5'- aGCuuuGCCGCCCGGCuGGUugagguugccGAUGCGGu -3'
miRNA:   3'- gUGc--CGGUGGGCUGuCCA----------CUAUGUCc -5'
19301 3' -56.1 NC_004685.1 + 20027 0.67 0.69884
Target:  5'- --gGGCgACCCGcCGGGgcgGAUcaucGCGGGg -3'
miRNA:   3'- gugCCGgUGGGCuGUCCa--CUA----UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 29107 0.68 0.623315
Target:  5'- -cCGGCCGCgCCGGCccAGGUGGUcgacaccGCGGu -3'
miRNA:   3'- guGCCGGUG-GGCUG--UCCACUA-------UGUCc -5'
19301 3' -56.1 NC_004685.1 + 14143 0.69 0.571193
Target:  5'- gCugGGCgaGCCCGAcCGGGUGA---AGGg -3'
miRNA:   3'- -GugCCGg-UGGGCU-GUCCACUaugUCC- -5'
19301 3' -56.1 NC_004685.1 + 39209 0.66 0.757401
Target:  5'- cCACGcGCCGCCUGGCGgcggcuucggcgccGGcUGGgggACGGGc -3'
miRNA:   3'- -GUGC-CGGUGGGCUGU--------------CC-ACUa--UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 17676 0.66 0.730032
Target:  5'- cCGgGGCCGcCCCGGCGucGGcacUGAU-CAGGg -3'
miRNA:   3'- -GUgCCGGU-GGGCUGU--CC---ACUAuGUCC- -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.