miRNA display CGI


Results 1 - 20 of 37 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
23664 3' -54.2 NC_005261.1 + 451 0.67 0.900207
Target:  5'- gGGGACGggggCcGCGaCGGCCG-GCGGGAu -3'
miRNA:   3'- gUCUUGUa---GaUGC-GCCGGCaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 1474 0.67 0.871789
Target:  5'- --cAGCA---GCGCGGCCGcGCAGAAg -3'
miRNA:   3'- gucUUGUagaUGCGCCGGCaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 3652 0.69 0.776138
Target:  5'- cUAGcGCGUCUGgagcgcaggcCGCGGCCG-GCAGGc -3'
miRNA:   3'- -GUCuUGUAGAU----------GCGCCGGCaCGUCUu -5'
23664 3' -54.2 NC_005261.1 + 4050 0.66 0.935365
Target:  5'- aCAGcGCGuUCUGCGCGGCCaugGCGu-- -3'
miRNA:   3'- -GUCuUGU-AGAUGCGCCGGca-CGUcuu -5'
23664 3' -54.2 NC_005261.1 + 14973 0.71 0.695457
Target:  5'- uGGGGCGaCUGCGCGGCCGcGCcGGc -3'
miRNA:   3'- gUCUUGUaGAUGCGCCGGCaCGuCUu -5'
23664 3' -54.2 NC_005261.1 + 16163 0.67 0.900207
Target:  5'- gCAGGGCAguaggggGCGCGGgCGUGgCGGGGg -3'
miRNA:   3'- -GUCUUGUaga----UGCGCCgGCAC-GUCUU- -5'
23664 3' -54.2 NC_005261.1 + 17850 0.67 0.886478
Target:  5'- gCAGGGCcUCguaagaGCGGCCGgccgGCAGGc -3'
miRNA:   3'- -GUCUUGuAGaug---CGCCGGCa---CGUCUu -5'
23664 3' -54.2 NC_005261.1 + 28790 0.69 0.813499
Target:  5'- -cGGGCG-CU-CGCGGCCGcgGCGGAGg -3'
miRNA:   3'- guCUUGUaGAuGCGCCGGCa-CGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 29567 0.67 0.893465
Target:  5'- uGGcGCGccugCUGCaGCGGCgCGUGCAGGg -3'
miRNA:   3'- gUCuUGUa---GAUG-CGCCG-GCACGUCUu -5'
23664 3' -54.2 NC_005261.1 + 29916 0.68 0.83116
Target:  5'- -cGAGCggCUGCGCGaGCUG-GCGGAc -3'
miRNA:   3'- guCUUGuaGAUGCGC-CGGCaCGUCUu -5'
23664 3' -54.2 NC_005261.1 + 32233 0.67 0.879251
Target:  5'- gCGGuGGCcuUCUGCGCGGCCGcgcUGCuGGAg -3'
miRNA:   3'- -GUC-UUGu-AGAUGCGCCGGC---ACGuCUU- -5'
23664 3' -54.2 NC_005261.1 + 34913 0.67 0.900207
Target:  5'- -cGGAgGUCgggGCGCGGCCacGCGGGGg -3'
miRNA:   3'- guCUUgUAGa--UGCGCCGGcaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 38121 1.06 0.004865
Target:  5'- cCAGAACAUCUACGCGGCCGUGCAGAAg -3'
miRNA:   3'- -GUCUUGUAGAUGCGCCGGCACGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 39782 0.67 0.893465
Target:  5'- gAGGACGUCgccggggggcgGCGCGGCCGccgGCGc-- -3'
miRNA:   3'- gUCUUGUAGa----------UGCGCCGGCa--CGUcuu -5'
23664 3' -54.2 NC_005261.1 + 39880 0.68 0.848047
Target:  5'- cCAGcaGGCcgCgcGCGCGGCUGUGCAGc- -3'
miRNA:   3'- -GUC--UUGuaGa-UGCGCCGGCACGUCuu -5'
23664 3' -54.2 NC_005261.1 + 42635 0.69 0.822422
Target:  5'- gGGGAC-UCggccgcCGCGGCCGcGCGGAAc -3'
miRNA:   3'- gUCUUGuAGau----GCGCCGGCaCGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 44440 0.7 0.726416
Target:  5'- uGGAGCGgcUCU-CGCGGCUGUgggaGCAGGAg -3'
miRNA:   3'- gUCUUGU--AGAuGCGCCGGCA----CGUCUU- -5'
23664 3' -54.2 NC_005261.1 + 50934 0.7 0.726416
Target:  5'- gCGGGGCuccccugcuUCUACGCGGCCGUGg---- -3'
miRNA:   3'- -GUCUUGu--------AGAUGCGCCGGCACgucuu -5'
23664 3' -54.2 NC_005261.1 + 54139 0.66 0.906701
Target:  5'- aCGGcacGCcgC-ACGCGGCCGUGCGcGGGg -3'
miRNA:   3'- -GUCu--UGuaGaUGCGCCGGCACGU-CUU- -5'
23664 3' -54.2 NC_005261.1 + 55404 0.66 0.924665
Target:  5'- gAGAcuGCAUCUACGCGcgcGCCG-GCuGGc -3'
miRNA:   3'- gUCU--UGUAGAUGCGC---CGGCaCGuCUu -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.