miRNA display CGI


Results 1 - 18 of 18 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
32593 3' -55.3 NC_007151.1 + 140363 1.09 0.00414
Target:  5'- cGUCGACUCCAUCCACGCCGACGAUCGu -3'
miRNA:   3'- -CAGCUGAGGUAGGUGCGGCUGCUAGC- -5'
32593 3' -55.3 NC_007151.1 + 134317 0.66 0.948786
Target:  5'- aUCGGCgguUCUGUCgGCGCCGcCGuaGUCGg -3'
miRNA:   3'- cAGCUG---AGGUAGgUGCGGCuGC--UAGC- -5'
32593 3' -55.3 NC_007151.1 + 133564 0.76 0.467939
Target:  5'- cGUCGGCUUCgauGUCCACGUCGAUGAcccauucUCGa -3'
miRNA:   3'- -CAGCUGAGG---UAGGUGCGGCUGCU-------AGC- -5'
32593 3' -55.3 NC_007151.1 + 126334 0.72 0.666924
Target:  5'- aGUCGugUUCAUUgGCGCUGGCGcgCu -3'
miRNA:   3'- -CAGCugAGGUAGgUGCGGCUGCuaGc -5'
32593 3' -55.3 NC_007151.1 + 126180 0.67 0.894419
Target:  5'- -aCGACuuugauaUCCAUCgAUGUgGACGAUCa -3'
miRNA:   3'- caGCUG-------AGGUAGgUGCGgCUGCUAGc -5'
32593 3' -55.3 NC_007151.1 + 123710 0.66 0.939917
Target:  5'- aGUUGACgUCCGU-CGCGCUuaGACGuAUCGa -3'
miRNA:   3'- -CAGCUG-AGGUAgGUGCGG--CUGC-UAGC- -5'
32593 3' -55.3 NC_007151.1 + 123286 0.69 0.822603
Target:  5'- cGUCGACUgcuuuauuguuguuuUCGUCgACuaCGACGGUCGg -3'
miRNA:   3'- -CAGCUGA---------------GGUAGgUGcgGCUGCUAGC- -5'
32593 3' -55.3 NC_007151.1 + 109638 0.67 0.913645
Target:  5'- cGUCGACgCCAUaguCGCUGACGAcauucUCGu -3'
miRNA:   3'- -CAGCUGaGGUAgguGCGGCUGCU-----AGC- -5'
32593 3' -55.3 NC_007151.1 + 104852 0.69 0.844037
Target:  5'- -gCGAUUCCA--UugGCUGGCGAUCa -3'
miRNA:   3'- caGCUGAGGUagGugCGGCUGCUAGc -5'
32593 3' -55.3 NC_007151.1 + 95650 0.66 0.935133
Target:  5'- aUCGGCUCgA-CCGcCGCCGACucuUCGa -3'
miRNA:   3'- cAGCUGAGgUaGGU-GCGGCUGcu-AGC- -5'
32593 3' -55.3 NC_007151.1 + 95314 0.68 0.867168
Target:  5'- uUCGAC-CgAUCCAcgcugcCGCCGACGGUgGc -3'
miRNA:   3'- cAGCUGaGgUAGGU------GCGGCUGCUAgC- -5'
32593 3' -55.3 NC_007151.1 + 92882 0.67 0.91937
Target:  5'- aGUCGGCgCCAUCguCGUCGuCGAcgUCGc -3'
miRNA:   3'- -CAGCUGaGGUAGguGCGGCuGCU--AGC- -5'
32593 3' -55.3 NC_007151.1 + 73804 0.67 0.907685
Target:  5'- gGUCGAUUCUAUUCACG-CGAUGGa-- -3'
miRNA:   3'- -CAGCUGAGGUAGGUGCgGCUGCUagc -5'
32593 3' -55.3 NC_007151.1 + 55022 0.69 0.844037
Target:  5'- uUCGACUgcgaaggcggugCCAUCguCGCCGACGGa-- -3'
miRNA:   3'- cAGCUGA------------GGUAGguGCGGCUGCUagc -5'
32593 3' -55.3 NC_007151.1 + 53458 0.68 0.881558
Target:  5'- aUCGGCUCCAgaUCguaGCgGACGAUCu -3'
miRNA:   3'- cAGCUGAGGU--AGgugCGgCUGCUAGc -5'
32593 3' -55.3 NC_007151.1 + 48050 0.84 0.153506
Target:  5'- cGUCGACUCCAUCCACGaUCGucccgcggcgacgcGCGAUCGa -3'
miRNA:   3'- -CAGCUGAGGUAGGUGC-GGC--------------UGCUAGC- -5'
32593 3' -55.3 NC_007151.1 + 29134 0.67 0.907077
Target:  5'- -cCGAgUCUAUCCAUugcaaaauaaacgGCCGACGGUa- -3'
miRNA:   3'- caGCUgAGGUAGGUG-------------CGGCUGCUAgc -5'
32593 3' -55.3 NC_007151.1 + 22070 0.71 0.70707
Target:  5'- uGUCGACgCCAUUgACGCUGACGcuauuGUCa -3'
miRNA:   3'- -CAGCUGaGGUAGgUGCGGCUGC-----UAGc -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.