miRNA display CGI


Results 1 - 16 of 16 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
26971 5' -53.5 NC_005809.1 + 33934 0.66 0.74506
Target:  5'- gAUGAaggCCGGCGACcUCGCCaccgcagcGGcCGAGa -3'
miRNA:   3'- -UACUaa-GGUCGCUGaAGCGG--------CU-GCUC- -5'
26971 5' -53.5 NC_005809.1 + 32534 0.66 0.74506
Target:  5'- gGUGAUgCCGGCcagGAUgcugcCGCCGGCGAu -3'
miRNA:   3'- -UACUAaGGUCG---CUGaa---GCGGCUGCUc -5'
26971 5' -53.5 NC_005809.1 + 4818 0.66 0.734204
Target:  5'- -gGAUUgcuggCCGGCGACaggUCGCCGuaguCGAu -3'
miRNA:   3'- uaCUAA-----GGUCGCUGa--AGCGGCu---GCUc -5'
26971 5' -53.5 NC_005809.1 + 18392 0.66 0.734204
Target:  5'- -cGAUggcgCCGGUGGCggccaCGUCGGCGAa -3'
miRNA:   3'- uaCUAa---GGUCGCUGaa---GCGGCUGCUc -5'
26971 5' -53.5 NC_005809.1 + 28666 0.66 0.734204
Target:  5'- -cGGUgCCGGCGGCcUCGCCaGCGcGg -3'
miRNA:   3'- uaCUAaGGUCGCUGaAGCGGcUGCuC- -5'
26971 5' -53.5 NC_005809.1 + 14520 0.66 0.734204
Target:  5'- --uGUUCgAGCaGACcgUCGCCGACGuGu -3'
miRNA:   3'- uacUAAGgUCG-CUGa-AGCGGCUGCuC- -5'
26971 5' -53.5 NC_005809.1 + 12303 0.66 0.712176
Target:  5'- ---uUUCCGGCGAC-UCGCgCGACcAGc -3'
miRNA:   3'- uacuAAGGUCGCUGaAGCG-GCUGcUC- -5'
26971 5' -53.5 NC_005809.1 + 712 0.66 0.701029
Target:  5'- -aGAUaCCgcccaggauaggGGCGGCUUUGCCGACa-- -3'
miRNA:   3'- uaCUAaGG------------UCGCUGAAGCGGCUGcuc -5'
26971 5' -53.5 NC_005809.1 + 10013 0.67 0.68981
Target:  5'- cUGAUacgUCgGaGCGGCaUCGCCGGCGGc -3'
miRNA:   3'- uACUA---AGgU-CGCUGaAGCGGCUGCUc -5'
26971 5' -53.5 NC_005809.1 + 5461 0.67 0.655846
Target:  5'- gAUG-UUCCcgccgGGCGGCgaggugUUGCCGAUGGGg -3'
miRNA:   3'- -UACuAAGG-----UCGCUGa-----AGCGGCUGCUC- -5'
26971 5' -53.5 NC_005809.1 + 29209 0.68 0.633064
Target:  5'- cAUGGccuauUUCCAgaagcaauugcGCGACUUCGgCGGCGAc -3'
miRNA:   3'- -UACU-----AAGGU-----------CGCUGAAGCgGCUGCUc -5'
26971 5' -53.5 NC_005809.1 + 35428 0.68 0.621667
Target:  5'- cUGGUcaUCCAGgccgcagccgaCGACUUCGCgGACGuGa -3'
miRNA:   3'- uACUA--AGGUC-----------GCUGAAGCGgCUGCuC- -5'
26971 5' -53.5 NC_005809.1 + 40543 0.7 0.509828
Target:  5'- cGUG-UUCUAucgccugcGCGACUUCGCCaGCGAGc -3'
miRNA:   3'- -UACuAAGGU--------CGCUGAAGCGGcUGCUC- -5'
26971 5' -53.5 NC_005809.1 + 13234 0.74 0.302751
Target:  5'- cGUGGUUCgAG-GACUUgGCCGGCGAc -3'
miRNA:   3'- -UACUAAGgUCgCUGAAgCGGCUGCUc -5'
26971 5' -53.5 NC_005809.1 + 37699 0.74 0.295037
Target:  5'- cAUGAUUgC-GUGGC-UCGCCGGCGAGg -3'
miRNA:   3'- -UACUAAgGuCGCUGaAGCGGCUGCUC- -5'
26971 5' -53.5 NC_005809.1 + 34328 1.08 0.001242
Target:  5'- gAUGAUUCCAGCGACUUCGCCGACGAGg -3'
miRNA:   3'- -UACUAAGGUCGCUGAAGCGGCUGCUC- -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.