miRNA display CGI


Results 1 - 13 of 13 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
12496 3' -54.6 NC_003324.1 + 53850 0.66 0.768384
Target:  5'- -gGCGUCCGUCCacucgauauugGUgGUUUCaGCCAugAg -3'
miRNA:   3'- gaCGUAGGCAGG-----------CA-CGAAG-CGGUugU- -5'
12496 3' -54.6 NC_003324.1 + 20884 0.66 0.737186
Target:  5'- -cGCGUCaccaacacgGUCCGccGCcUCGCCAACGu -3'
miRNA:   3'- gaCGUAGg--------CAGGCa-CGaAGCGGUUGU- -5'
12496 3' -54.6 NC_003324.1 + 34009 0.66 0.736128
Target:  5'- uCUGCAuUCCG-CUGgcaacgcuucuauUGCUUUGUCAGCAa -3'
miRNA:   3'- -GACGU-AGGCaGGC-------------ACGAAGCGGUUGU- -5'
12496 3' -54.6 NC_003324.1 + 52378 0.67 0.694142
Target:  5'- aUGCAUCCGUCUG-GCcgCGgCAAa- -3'
miRNA:   3'- gACGUAGGCAGGCaCGaaGCgGUUgu -5'
12496 3' -54.6 NC_003324.1 + 14538 0.68 0.616896
Target:  5'- -aGCAaggUCCG-CCGaUGCUUggaCGCCGGCAu -3'
miRNA:   3'- gaCGU---AGGCaGGC-ACGAA---GCGGUUGU- -5'
12496 3' -54.6 NC_003324.1 + 45797 0.69 0.594794
Target:  5'- --aCAUCCGaUCCGUGCcgUCGCCu--- -3'
miRNA:   3'- gacGUAGGC-AGGCACGa-AGCGGuugu -5'
12496 3' -54.6 NC_003324.1 + 42786 0.7 0.518881
Target:  5'- -cGCAU-CGUCCGaugggaugaUGCcUCGCCAGCGg -3'
miRNA:   3'- gaCGUAgGCAGGC---------ACGaAGCGGUUGU- -5'
12496 3' -54.6 NC_003324.1 + 1883 0.7 0.508323
Target:  5'- -gGgGUCCGUUCGUGCUUC-CgAACGg -3'
miRNA:   3'- gaCgUAGGCAGGCACGAAGcGgUUGU- -5'
12496 3' -54.6 NC_003324.1 + 54784 0.7 0.497857
Target:  5'- -aGCGUUCGaCCGgauuugGCUUUGCCGACc -3'
miRNA:   3'- gaCGUAGGCaGGCa-----CGAAGCGGUUGu -5'
12496 3' -54.6 NC_003324.1 + 14666 0.71 0.437286
Target:  5'- cCUGCG-CCG-CCGgccGCUUgCGCCGGCAg -3'
miRNA:   3'- -GACGUaGGCaGGCa--CGAA-GCGGUUGU- -5'
12496 3' -54.6 NC_003324.1 + 49335 0.71 0.427603
Target:  5'- uCUGCA--CGUgCUGUGCggCGCCAACAg -3'
miRNA:   3'- -GACGUagGCA-GGCACGaaGCGGUUGU- -5'
12496 3' -54.6 NC_003324.1 + 18138 0.73 0.372295
Target:  5'- gUGUAUUCGacgCCG-GUUUCGCCGACAc -3'
miRNA:   3'- gACGUAGGCa--GGCaCGAAGCGGUUGU- -5'
12496 3' -54.6 NC_003324.1 + 56240 1.09 0.001161
Target:  5'- cCUGCAUCCGUCCGUGCUUCGCCAACAg -3'
miRNA:   3'- -GACGUAGGCAGGCACGAAGCGGUUGU- -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.