miRNA display CGI


Results 1 - 20 of 67 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
18338 3' -59.3 NC_004681.1 + 36808 0.67 0.503508
Target:  5'- -aGGCaGUCCucuuugUCGCCgCGGGCCGUGg -3'
miRNA:   3'- cgCCGgUAGG------AGCGGgGUCUGGUACg -5'
18338 3' -59.3 NC_004681.1 + 74747 0.69 0.418414
Target:  5'- cGCGGgUGUCCUcCGCCUC--ACCAUGUu -3'
miRNA:   3'- -CGCCgGUAGGA-GCGGGGucUGGUACG- -5'
18338 3' -59.3 NC_004681.1 + 75424 0.68 0.444905
Target:  5'- cGCGGCCGUaCUCGCggcgcagCCCAcguGCCuAUGCg -3'
miRNA:   3'- -CGCCGGUAgGAGCG-------GGGUc--UGG-UACG- -5'
18338 3' -59.3 NC_004681.1 + 1103 0.68 0.455198
Target:  5'- -aGGCCAUCUacgagCGCCUCaAGGCCAUc- -3'
miRNA:   3'- cgCCGGUAGGa----GCGGGG-UCUGGUAcg -5'
18338 3' -59.3 NC_004681.1 + 38652 0.68 0.455198
Target:  5'- uGgGGCCuucugCCUCGCaCCCGcucuGACCA-GCc -3'
miRNA:   3'- -CgCCGGua---GGAGCG-GGGU----CUGGUaCG- -5'
18338 3' -59.3 NC_004681.1 + 20047 0.68 0.474233
Target:  5'- gGUGGCCGcgcuaCCUCuGCUaCGGACCcgGCa -3'
miRNA:   3'- -CGCCGGUa----GGAG-CGGgGUCUGGuaCG- -5'
18338 3' -59.3 NC_004681.1 + 23864 0.68 0.478088
Target:  5'- aGCGGCCugacgGacacgauugacgacaUCCgcggaCGCaUCCAGGCCAUGCu -3'
miRNA:   3'- -CGCCGG-----U---------------AGGa----GCG-GGGUCUGGUACG- -5'
18338 3' -59.3 NC_004681.1 + 16153 0.67 0.502519
Target:  5'- gGCGGCCAUCCcgUCGCucaucgcgcuguCCUcGGCCAUcuucaugGCa -3'
miRNA:   3'- -CGCCGGUAGG--AGCG------------GGGuCUGGUA-------CG- -5'
18338 3' -59.3 NC_004681.1 + 30673 0.67 0.502519
Target:  5'- cGCGGUCAagCUCGCCuuCCAucacggcccugguGGCgGUGCg -3'
miRNA:   3'- -CGCCGGUagGAGCGG--GGU-------------CUGgUACG- -5'
18338 3' -59.3 NC_004681.1 + 64789 0.69 0.409503
Target:  5'- cCGGUCGU-CUCGCCCCAcGAgC-UGCa -3'
miRNA:   3'- cGCCGGUAgGAGCGGGGU-CUgGuACG- -5'
18338 3' -59.3 NC_004681.1 + 26652 0.69 0.409503
Target:  5'- --cGCCGaacUCCUUGUCCCGGGCUcuAUGCc -3'
miRNA:   3'- cgcCGGU---AGGAGCGGGGUCUGG--UACG- -5'
18338 3' -59.3 NC_004681.1 + 35362 0.69 0.392041
Target:  5'- gGCGGCCucAUCCUCGCUgcguCCAaGCCAccgGUg -3'
miRNA:   3'- -CGCCGG--UAGGAGCGG----GGUcUGGUa--CG- -5'
18338 3' -59.3 NC_004681.1 + 58656 0.73 0.245492
Target:  5'- aCGGCCG-CCUgCGCCgCGGGCCAcaccUGCc -3'
miRNA:   3'- cGCCGGUaGGA-GCGGgGUCUGGU----ACG- -5'
18338 3' -59.3 NC_004681.1 + 56174 0.72 0.271338
Target:  5'- cGCGGCCAcaaguccagcgcgcUCCUCauGCCCCuugagucgguggccuGGACCG-GCg -3'
miRNA:   3'- -CGCCGGU--------------AGGAG--CGGGG---------------UCUGGUaCG- -5'
18338 3' -59.3 NC_004681.1 + 61741 0.72 0.290911
Target:  5'- -aGGCCGcCCUCGCgcgccaCCAGACCGcgGCc -3'
miRNA:   3'- cgCCGGUaGGAGCGg-----GGUCUGGUa-CG- -5'
18338 3' -59.3 NC_004681.1 + 18395 0.71 0.310842
Target:  5'- gGCGGCCGcggcggcaaacgCCuUCGCaCCCGGAUCggGCa -3'
miRNA:   3'- -CGCCGGUa-----------GG-AGCG-GGGUCUGGuaCG- -5'
18338 3' -59.3 NC_004681.1 + 9416 0.71 0.310842
Target:  5'- uCGGUCAUCCagaccgcUCGCCgCGagggcguGACCAUGCa -3'
miRNA:   3'- cGCCGGUAGG-------AGCGGgGU-------CUGGUACG- -5'
18338 3' -59.3 NC_004681.1 + 7263 0.7 0.350565
Target:  5'- cGCGGCCGUCCa--CCUCGGcGCCgaGUGCg -3'
miRNA:   3'- -CGCCGGUAGGagcGGGGUC-UGG--UACG- -5'
18338 3' -59.3 NC_004681.1 + 42096 0.7 0.358606
Target:  5'- cGgGGCCAaCCUC-UCCCGGGCCAacuuugacgaUGCc -3'
miRNA:   3'- -CgCCGGUaGGAGcGGGGUCUGGU----------ACG- -5'
18338 3' -59.3 NC_004681.1 + 66992 0.7 0.358606
Target:  5'- uCGGCCugcacgcgcgCCUCauGUCgCAGGCCAUGCg -3'
miRNA:   3'- cGCCGGua--------GGAG--CGGgGUCUGGUACG- -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.