miRNA display CGI


Results 1 - 20 of 66 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
23272 3' -59.3 NC_005259.1 + 7403 0.66 0.607825
Target:  5'- aCCCGCaACGGCauccucguCGccGUCGGCGGu -3'
miRNA:   3'- cGGGCGaUGCCGgu------GCucUAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 27144 0.66 0.607825
Target:  5'- gGgCgGCUGCGGUguUGGGGccaacgaugccgUCGGCGAu -3'
miRNA:   3'- -CgGgCGAUGCCGguGCUCU------------AGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 43304 0.66 0.597393
Target:  5'- cGCCCGCcugaAUGGCUGCGuuGGccaccgccUUGGCGAu -3'
miRNA:   3'- -CGGGCGa---UGCCGGUGCu-CU--------AGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 32183 0.66 0.597393
Target:  5'- aGCUCGCUGCGcGCCuc--GGUCuGCGAc -3'
miRNA:   3'- -CGGGCGAUGC-CGGugcuCUAGcCGCU- -5'
23272 3' -59.3 NC_005259.1 + 29853 0.66 0.586988
Target:  5'- cGCUCGCUgucgggcaucgaACuGCCAccgcccgauguCGAGGUCGGCa- -3'
miRNA:   3'- -CGGGCGA------------UGcCGGU-----------GCUCUAGCCGcu -5'
23272 3' -59.3 NC_005259.1 + 60157 0.66 0.586988
Target:  5'- -gCCGCcucaGCGGCCucACGGG--CGGCGAa -3'
miRNA:   3'- cgGGCGa---UGCCGG--UGCUCuaGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 10322 0.66 0.586988
Target:  5'- cGUCaucggGCU-CGGCgACGGGcUCGGCGGc -3'
miRNA:   3'- -CGGg----CGAuGCCGgUGCUCuAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 31831 0.66 0.58076
Target:  5'- cGCCCGCgucgaucuucucgcGCGuGaCCGCGucAUUGGCGAu -3'
miRNA:   3'- -CGGGCGa-------------UGC-C-GGUGCucUAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 41132 0.66 0.58076
Target:  5'- uGCCCGCgucGCGcaGCCucaggccccaugugcACGAGGUguacUGGCGAg -3'
miRNA:   3'- -CGGGCGa--UGC--CGG---------------UGCUCUA----GCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 54132 0.66 0.576617
Target:  5'- cGCUCGUgaccagACGGUUuCGAGGccCGGCGAu -3'
miRNA:   3'- -CGGGCGa-----UGCCGGuGCUCUa-GCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 5412 0.66 0.576617
Target:  5'- aCCCGCgcUGGCCGCcacgucGAGGUCuGCGc -3'
miRNA:   3'- cGGGCGauGCCGGUG------CUCUAGcCGCu -5'
23272 3' -59.3 NC_005259.1 + 4275 0.66 0.576617
Target:  5'- gGgCgGCUGCGcuGCCACGAGcacggacCGGCGGc -3'
miRNA:   3'- -CgGgCGAUGC--CGGUGCUCua-----GCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 19955 0.66 0.576617
Target:  5'- cGUCCGCaACGGCgGC----UCGGCGGu -3'
miRNA:   3'- -CGGGCGaUGCCGgUGcucuAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 50331 0.66 0.575582
Target:  5'- aGCUCGUcGCGGCCcuuguccucggucACGAuGUCGGUGu -3'
miRNA:   3'- -CGGGCGaUGCCGG-------------UGCUcUAGCCGCu -5'
23272 3' -59.3 NC_005259.1 + 960 0.66 0.566287
Target:  5'- aGCUCGCgcaacggcucaACGGCgACGAGAcacCGGCa- -3'
miRNA:   3'- -CGGGCGa----------UGCCGgUGCUCUa--GCCGcu -5'
23272 3' -59.3 NC_005259.1 + 58662 0.66 0.556006
Target:  5'- aGCCCGgUGCaccggGGUgcagcuuccauCGCGGGGUCGGCu- -3'
miRNA:   3'- -CGGGCgAUG-----CCG-----------GUGCUCUAGCCGcu -5'
23272 3' -59.3 NC_005259.1 + 56677 0.66 0.556006
Target:  5'- gGCUCGUugcgccacccaUACGGCUGCGAGGU-GGCc- -3'
miRNA:   3'- -CGGGCG-----------AUGCCGGUGCUCUAgCCGcu -5'
23272 3' -59.3 NC_005259.1 + 66879 0.67 0.545779
Target:  5'- cGCaCCGCgccACGGCUugauCGuGAaCGGCGGu -3'
miRNA:   3'- -CG-GGCGa--UGCCGGu---GCuCUaGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 51136 0.67 0.539672
Target:  5'- -aCCGUcgggGCGGCCAUGAGcgCguucggguugaccguGGCGAg -3'
miRNA:   3'- cgGGCGa---UGCCGGUGCUCuaG---------------CCGCU- -5'
23272 3' -59.3 NC_005259.1 + 24884 0.67 0.535614
Target:  5'- -aCCGCUAuCGaGUCAgcCGAGGaCGGCGAg -3'
miRNA:   3'- cgGGCGAU-GC-CGGU--GCUCUaGCCGCU- -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.