miRNA display CGI


Results 1 - 20 of 20 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
24883 3' -60.3 NC_005284.1 + 31270 0.66 0.50176
Target:  5'- -uGGCGUGUCggcgaucaggCGGaacaGGUCCGCGcGCc -3'
miRNA:   3'- gcCCGCACAGa---------GCCg---CUAGGCGUcCG- -5'
24883 3' -60.3 NC_005284.1 + 27519 0.66 0.50176
Target:  5'- uGGGCGcGUCgaGGCGuUCCucGCGGGg -3'
miRNA:   3'- gCCCGCaCAGagCCGCuAGG--CGUCCg -5'
24883 3' -60.3 NC_005284.1 + 17487 0.66 0.50176
Target:  5'- gGGGCGccGggUCGGUGGUCgCGUcGGCc -3'
miRNA:   3'- gCCCGCa-CagAGCCGCUAG-GCGuCCG- -5'
24883 3' -60.3 NC_005284.1 + 9029 0.66 0.481045
Target:  5'- uCGGGU--GUCUCGGCaGAUaCUGCucguaugGGGCu -3'
miRNA:   3'- -GCCCGcaCAGAGCCG-CUA-GGCG-------UCCG- -5'
24883 3' -60.3 NC_005284.1 + 14568 0.66 0.472295
Target:  5'- uCGGcGCuGUGcguugcgCUUGGCGAUCuCGUcGGCg -3'
miRNA:   3'- -GCC-CG-CACa------GAGCCGCUAG-GCGuCCG- -5'
24883 3' -60.3 NC_005284.1 + 13377 0.66 0.472295
Target:  5'- uGGGCGgcgaucUGUCUgCGGCGGUUCaaaGCgacgaAGGCc -3'
miRNA:   3'- gCCCGC------ACAGA-GCCGCUAGG---CG-----UCCG- -5'
24883 3' -60.3 NC_005284.1 + 52454 0.66 0.462668
Target:  5'- uGGGCG-GUUUC-----UCCGCAGGCa -3'
miRNA:   3'- gCCCGCaCAGAGccgcuAGGCGUCCG- -5'
24883 3' -60.3 NC_005284.1 + 47804 0.66 0.462668
Target:  5'- aCGGGCGagcgCUUGGCGGcgCUGCgauGGGUg -3'
miRNA:   3'- -GCCCGCaca-GAGCCGCUa-GGCG---UCCG- -5'
24883 3' -60.3 NC_005284.1 + 6043 0.66 0.44373
Target:  5'- gCGaGGaCGuUGUCUCGGgGGcgUCCGCGaGCg -3'
miRNA:   3'- -GC-CC-GC-ACAGAGCCgCU--AGGCGUcCG- -5'
24883 3' -60.3 NC_005284.1 + 15336 0.67 0.434426
Target:  5'- uGGGUgaucGUGUCgcUCGGCG---UGCAGGCc -3'
miRNA:   3'- gCCCG----CACAG--AGCCGCuagGCGUCCG- -5'
24883 3' -60.3 NC_005284.1 + 30073 0.67 0.427981
Target:  5'- aCGGGCGUcGUUucgcccuUCGGCGAcaugccaccUugaccggaguuggcuCCGUAGGCa -3'
miRNA:   3'- -GCCCGCA-CAG-------AGCCGCU---------A---------------GGCGUCCG- -5'
24883 3' -60.3 NC_005284.1 + 12302 0.67 0.389669
Target:  5'- cCGGGCGUGcgcgcacacCUUGaGCGAUUgaaCGCAGGg -3'
miRNA:   3'- -GCCCGCACa--------GAGC-CGCUAG---GCGUCCg -5'
24883 3' -60.3 NC_005284.1 + 9472 0.68 0.381086
Target:  5'- uGGGCaauccgcaGUCgCGGCGA--CGCAGGCg -3'
miRNA:   3'- gCCCGca------CAGaGCCGCUagGCGUCCG- -5'
24883 3' -60.3 NC_005284.1 + 19415 0.68 0.364303
Target:  5'- -aGGCGUGa-UCGGCGcgCCGUucguugugcaAGGCg -3'
miRNA:   3'- gcCCGCACagAGCCGCuaGGCG----------UCCG- -5'
24883 3' -60.3 NC_005284.1 + 47733 0.69 0.332299
Target:  5'- aGGcCGUG-CUCGGCGGUaCgGCGGcGCg -3'
miRNA:   3'- gCCcGCACaGAGCCGCUA-GgCGUC-CG- -5'
24883 3' -60.3 NC_005284.1 + 18622 0.69 0.295268
Target:  5'- uGGGCGUuUC-CGGgugacgGAUCCGCuGGCg -3'
miRNA:   3'- gCCCGCAcAGaGCCg-----CUAGGCGuCCG- -5'
24883 3' -60.3 NC_005284.1 + 5910 0.7 0.288258
Target:  5'- cCGGGCGUGUCcaCGGCGccgacuucUCCGCc-GCu -3'
miRNA:   3'- -GCCCGCACAGa-GCCGCu-------AGGCGucCG- -5'
24883 3' -60.3 NC_005284.1 + 26943 0.7 0.25517
Target:  5'- gCGGGCGUcGUCU-GGCGAcUCC-CAGcGCu -3'
miRNA:   3'- -GCCCGCA-CAGAgCCGCU-AGGcGUC-CG- -5'
24883 3' -60.3 NC_005284.1 + 15678 0.72 0.193352
Target:  5'- gCGGGCGUGuaUCUCGGUGAcgggcaauUCCuGCaccacaugcacGGGCg -3'
miRNA:   3'- -GCCCGCAC--AGAGCCGCU--------AGG-CG-----------UCCG- -5'
24883 3' -60.3 NC_005284.1 + 13423 1.1 0.000319
Target:  5'- gCGGGCGUGUCUCGGCGAUCCGCAGGCc -3'
miRNA:   3'- -GCCCGCACAGAGCCGCUAGGCGUCCG- -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.