miRNA display CGI


Results 1 - 20 of 25 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
24827 3' -56.8 NC_005284.1 + 36101 0.66 0.678136
Target:  5'- cUUGGUCGcGUCGUCgCGAUUcggCGUGCGg -3'
miRNA:   3'- cAGCUAGU-CAGCGG-GCUAGa--GCGCGC- -5'
24827 3' -56.8 NC_005284.1 + 7613 0.66 0.678136
Target:  5'- uUCGGguUCGG-CGCCUGAUgUaCGCGCc -3'
miRNA:   3'- cAGCU--AGUCaGCGGGCUAgA-GCGCGc -5'
24827 3' -56.8 NC_005284.1 + 32866 0.66 0.645819
Target:  5'- uGUCGAUC--UCGCgCUGAUCgUCGCcgGCGa -3'
miRNA:   3'- -CAGCUAGucAGCG-GGCUAG-AGCG--CGC- -5'
24827 3' -56.8 NC_005284.1 + 39654 0.66 0.645819
Target:  5'- -gCGAUCAGaUCGCuuGcaacUUCGCGCa -3'
miRNA:   3'- caGCUAGUC-AGCGggCua--GAGCGCGc -5'
24827 3' -56.8 NC_005284.1 + 30257 0.66 0.63501
Target:  5'- cGUCGAgCGGgcgcguucguUCGCUguCGAguggCUCGCGCGa -3'
miRNA:   3'- -CAGCUaGUC----------AGCGG--GCUa---GAGCGCGC- -5'
24827 3' -56.8 NC_005284.1 + 3445 0.66 0.624198
Target:  5'- -cCGGUCAaUUGCCCGAgccaUUUGCGCu -3'
miRNA:   3'- caGCUAGUcAGCGGGCUa---GAGCGCGc -5'
24827 3' -56.8 NC_005284.1 + 10520 0.67 0.613392
Target:  5'- -cCGAUCAGgcagCGCUCGAUCgauuccUCGC-CGg -3'
miRNA:   3'- caGCUAGUCa---GCGGGCUAG------AGCGcGC- -5'
24827 3' -56.8 NC_005284.1 + 9125 0.67 0.591838
Target:  5'- cUCGAagAGUUGCCgGGUgUCGCGg- -3'
miRNA:   3'- cAGCUagUCAGCGGgCUAgAGCGCgc -5'
24827 3' -56.8 NC_005284.1 + 16490 0.68 0.553412
Target:  5'- -aCGAacgCAGUUGCCCGAccauccauaaaugcgUCUUGUGCc -3'
miRNA:   3'- caGCUa--GUCAGCGGGCU---------------AGAGCGCGc -5'
24827 3' -56.8 NC_005284.1 + 31863 0.68 0.549184
Target:  5'- aUCGAUCAGaacaGCCCGA-CUgGCuGCGc -3'
miRNA:   3'- cAGCUAGUCag--CGGGCUaGAgCG-CGC- -5'
24827 3' -56.8 NC_005284.1 + 44116 0.68 0.549184
Target:  5'- uGUCGAUCg--CGCCCGcgg-CGCGCa -3'
miRNA:   3'- -CAGCUAGucaGCGGGCuagaGCGCGc -5'
24827 3' -56.8 NC_005284.1 + 46881 0.69 0.497325
Target:  5'- uUCGAUCcagaacaugcGGUCGCCgaCGucggCUCGCGCa -3'
miRNA:   3'- cAGCUAG----------UCAGCGG--GCua--GAGCGCGc -5'
24827 3' -56.8 NC_005284.1 + 7123 0.69 0.457474
Target:  5'- aUCGAUCAa-CGCCUGAaccUUCGCGCGu -3'
miRNA:   3'- cAGCUAGUcaGCGGGCUa--GAGCGCGC- -5'
24827 3' -56.8 NC_005284.1 + 7484 0.69 0.457474
Target:  5'- -cCGAgcUCGGcUUGCCCGAUC-CGgGCGa -3'
miRNA:   3'- caGCU--AGUC-AGCGGGCUAGaGCgCGC- -5'
24827 3' -56.8 NC_005284.1 + 35456 0.69 0.447779
Target:  5'- uUCG-UCg--CGCUgGAUCUCGCGCGg -3'
miRNA:   3'- cAGCuAGucaGCGGgCUAGAGCGCGC- -5'
24827 3' -56.8 NC_005284.1 + 9567 0.7 0.428738
Target:  5'- -gUGAUCcacgCGCUCGAUCUCGUGCc -3'
miRNA:   3'- caGCUAGuca-GCGGGCUAGAGCGCGc -5'
24827 3' -56.8 NC_005284.1 + 9899 0.7 0.427799
Target:  5'- cUCGAgcgCGccgaagcGUCGCUCGcgCUCGCGCa -3'
miRNA:   3'- cAGCUa--GU-------CAGCGGGCuaGAGCGCGc -5'
24827 3' -56.8 NC_005284.1 + 7343 0.7 0.392135
Target:  5'- uGUCGAa-AGUUGCgucgaCCGAUCUCGaCGCGg -3'
miRNA:   3'- -CAGCUagUCAGCG-----GGCUAGAGC-GCGC- -5'
24827 3' -56.8 NC_005284.1 + 7474 0.71 0.34934
Target:  5'- aUCGAUCAGUUGa-CGGUucagCUCGCGCGc -3'
miRNA:   3'- cAGCUAGUCAGCggGCUA----GAGCGCGC- -5'
24827 3' -56.8 NC_005284.1 + 4079 0.72 0.34119
Target:  5'- uUCGAaauaCuGUCGCgUCGAUCUCGCGCu -3'
miRNA:   3'- cAGCUa---GuCAGCG-GGCUAGAGCGCGc -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.