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 + 64318 1.13 0.000296
Target:  5'- aGCGGCCAUCCUCGCCCCAGACCAUGCg -3'
miRNA:   3'- -CGCCGGUAGGAGCGGGGUCUGGUACG- -5'
18338 3' -59.3 NC_004681.1 + 49117 0.75 0.186155
Target:  5'- -gGGCC-UCCUCGCCCUucuuGAUgGUGCc -3'
miRNA:   3'- cgCCGGuAGGAGCGGGGu---CUGgUACG- -5'
18338 3' -59.3 NC_004681.1 + 1392 0.75 0.190979
Target:  5'- uCGGCCAg-CUCGUCCCAGACUuccuggGCg -3'
miRNA:   3'- cGCCGGUagGAGCGGGGUCUGGua----CG- -5'
18338 3' -59.3 NC_004681.1 + 53455 0.74 0.206115
Target:  5'- uGCGGaCCca-CUCGUCUgGGGCCAUGCg -3'
miRNA:   3'- -CGCC-GGuagGAGCGGGgUCUGGUACG- -5'
18338 3' -59.3 NC_004681.1 + 461 0.73 0.227899
Target:  5'- cGCgGGCuCGUCCUCGCggauggcgCCCAuGACgGUGCa -3'
miRNA:   3'- -CG-CCG-GUAGGAGCG--------GGGU-CUGgUACG- -5'
18338 3' -59.3 NC_004681.1 + 16394 0.73 0.239506
Target:  5'- uCGGCCA-CCUC-CaagggugaCCAGGCCAUGCg -3'
miRNA:   3'- cGCCGGUaGGAGcGg-------GGUCUGGUACG- -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 + 65756 0.72 0.270682
Target:  5'- cUGGUCGUUgUCGUCCCAGG-CGUGCu -3'
miRNA:   3'- cGCCGGUAGgAGCGGGGUCUgGUACG- -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 + 30942 0.72 0.274636
Target:  5'- gGCGuGCCGUCCUCcacgauggguccggGCagguaggCCCAGGCCGUGg -3'
miRNA:   3'- -CGC-CGGUAGGAG--------------CG-------GGGUCUGGUACg -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 + 18833 0.71 0.305043
Target:  5'- cGCGGCCucgccgCCgUCGCCCUuGGCgAUGUu -3'
miRNA:   3'- -CGCCGGua----GG-AGCGGGGuCUGgUACG- -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 + 18395 0.71 0.310842
Target:  5'- gGCGGCCGcggcggcaaacgCCuUCGCaCCCGGAUCggGCa -3'
miRNA:   3'- -CGCCGGUa-----------GG-AGCG-GGGUCUGGuaCG- -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 + 66992 0.7 0.358606
Target:  5'- uCGGCCugcacgcgcgCCUCauGUCgCAGGCCAUGCg -3'
miRNA:   3'- cGCCGGua--------GGAG--CGGgGUCUGGUACG- -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 + 29518 0.7 0.365953
Target:  5'- -aGGCgA-CCUCGCCagugacgCCAGACCAcGCg -3'
miRNA:   3'- cgCCGgUaGGAGCGG-------GGUCUGGUaCG- -5'
18338 3' -59.3 NC_004681.1 + 13102 0.7 0.375072
Target:  5'- cGCGGCCA-CgUCGUCCgCGGuGCCA-GCg -3'
miRNA:   3'- -CGCCGGUaGgAGCGGG-GUC-UGGUaCG- -5'
18338 3' -59.3 NC_004681.1 + 35362 0.69 0.392041
Target:  5'- gGCGGCCucAUCCUCGCUgcguCCAaGCCAccgGUg -3'
miRNA:   3'- -CGCCGG--UAGGAGCGG----GGUcUGGUa--CG- -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.