miRNA display CGI


Results 1 - 20 of 69 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
18447 3' -59.1 NC_004681.1 + 70850 0.66 0.600073
Target:  5'- aGCGGCCGCagCAugcCCUCaGCCAUCc-- -3'
miRNA:   3'- -CGUCGGCGa-GUu--GGAGcCGGUGGuca -5'
18447 3' -59.1 NC_004681.1 + 70472 0.68 0.477535
Target:  5'- uGCGGCCGCgcguagacgUCAGCCguaUGGUCACUgaGGUu -3'
miRNA:   3'- -CGUCGGCG---------AGUUGGa--GCCGGUGG--UCA- -5'
18447 3' -59.1 NC_004681.1 + 69005 0.69 0.385576
Target:  5'- gGCGGCCGUgacgauggUCAgcgccucgaugGCgUCGGCCgcgGCCAGUa -3'
miRNA:   3'- -CGUCGGCG--------AGU-----------UGgAGCCGG---UGGUCA- -5'
18447 3' -59.1 NC_004681.1 + 67760 0.65 0.60956
Target:  5'- uGCGGCgGUacuUCAaugccuaGCCUCGGCCGuagccuccacCCGGg -3'
miRNA:   3'- -CGUCGgCG---AGU-------UGGAGCCGGU----------GGUCa -5'
18447 3' -59.1 NC_004681.1 + 66067 0.67 0.514229
Target:  5'- gGCAGCCuuCUCGGCCuUCGuGCCguagcggaugucauGCCAGa -3'
miRNA:   3'- -CGUCGGc-GAGUUGG-AGC-CGG--------------UGGUCa -5'
18447 3' -59.1 NC_004681.1 + 65783 0.75 0.167099
Target:  5'- gGCGGaguucguCCGuCUCGGCCUCGGCCGCCc-- -3'
miRNA:   3'- -CGUC-------GGC-GAGUUGGAGCCGGUGGuca -5'
18447 3' -59.1 NC_004681.1 + 65213 0.67 0.518266
Target:  5'- gGCGGCCGUacuucagggcgccuUCcaucauugccaggccGACCUCGGCgACCAc- -3'
miRNA:   3'- -CGUCGGCG--------------AG---------------UUGGAGCCGgUGGUca -5'
18447 3' -59.1 NC_004681.1 + 62953 0.67 0.537609
Target:  5'- aGCGGUCGCggUCcuUCUCGGCgCGCuCGGUg -3'
miRNA:   3'- -CGUCGGCG--AGuuGGAGCCG-GUG-GUCA- -5'
18447 3' -59.1 NC_004681.1 + 62613 0.66 0.600073
Target:  5'- gGCGGCUGC-CAgggugcccaugGCCUgGGCCAugaUCAGg -3'
miRNA:   3'- -CGUCGGCGaGU-----------UGGAgCCGGU---GGUCa -5'
18447 3' -59.1 NC_004681.1 + 62529 0.7 0.360356
Target:  5'- gGCAGCCGCcuccgacaccgUCuACCUCGGUguCAuCCAGg -3'
miRNA:   3'- -CGUCGGCG-----------AGuUGGAGCCG--GU-GGUCa -5'
18447 3' -59.1 NC_004681.1 + 61741 0.66 0.600073
Target:  5'- -aGGCCGC----CCUCGcgcGCCACCAGa -3'
miRNA:   3'- cgUCGGCGaguuGGAGC---CGGUGGUCa -5'
18447 3' -59.1 NC_004681.1 + 58628 0.68 0.487329
Target:  5'- gGCAugauuGUCGCg----CUCGGCCACCAGUu -3'
miRNA:   3'- -CGU-----CGGCGaguugGAGCCGGUGGUCA- -5'
18447 3' -59.1 NC_004681.1 + 57681 0.71 0.313455
Target:  5'- cGCAG-CGCUCGAcgcaauCCUCGGCCAacccgaCAGg -3'
miRNA:   3'- -CGUCgGCGAGUU------GGAGCCGGUg-----GUCa -5'
18447 3' -59.1 NC_004681.1 + 57397 0.69 0.411935
Target:  5'- aCAGCCcCUUAccACCcuucUCGGCUACCAGg -3'
miRNA:   3'- cGUCGGcGAGU--UGG----AGCCGGUGGUCa -5'
18447 3' -59.1 NC_004681.1 + 56325 0.71 0.327791
Target:  5'- uGCAGCuCGCUCGggucgacGCCgguccaGGCCACCGa- -3'
miRNA:   3'- -CGUCG-GCGAGU-------UGGag----CCGGUGGUca -5'
18447 3' -59.1 NC_004681.1 + 55974 0.68 0.477535
Target:  5'- gGguGCCG---GugCUCGGCUGCCAGg -3'
miRNA:   3'- -CguCGGCgagUugGAGCCGGUGGUCa -5'
18447 3' -59.1 NC_004681.1 + 55889 0.73 0.233871
Target:  5'- aGCAGCCGCUCucGACCUauggcgaGGUCGuuguuCCAGUa -3'
miRNA:   3'- -CGUCGGCGAG--UUGGAg------CCGGU-----GGUCA- -5'
18447 3' -59.1 NC_004681.1 + 53058 0.66 0.568627
Target:  5'- --uGCCGC-CAGCCUgccaGGCCACguCGGUg -3'
miRNA:   3'- cguCGGCGaGUUGGAg---CCGGUG--GUCA- -5'
18447 3' -59.1 NC_004681.1 + 52233 0.67 0.497217
Target:  5'- uGCAGCUGCUUGGCCgccaccuugaGGCUGCgGGa -3'
miRNA:   3'- -CGUCGGCGAGUUGGag--------CCGGUGgUCa -5'
18447 3' -59.1 NC_004681.1 + 50407 0.71 0.32094
Target:  5'- gGguGCCcaugaGUUCAGCgUCGGCCGCgGGg -3'
miRNA:   3'- -CguCGG-----CGAGUUGgAGCCGGUGgUCa -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.