miRNA display CGI


Results 1 - 20 of 21 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
17143 5' -50.9 NC_004333.2 + 2819 0.66 0.916691
Target:  5'- -gGCAcGGCGgccgCGAUCUCGgcugUGAc -3'
miRNA:   3'- cgCGU-CCGCaa--GCUAGAGCaguaACU- -5'
17143 5' -50.9 NC_004333.2 + 25762 0.66 0.903285
Target:  5'- uCGCGGGCGUUCaggcuGAUCagGUCGc--- -3'
miRNA:   3'- cGCGUCCGCAAG-----CUAGagCAGUaacu -5'
17143 5' -50.9 NC_004333.2 + 7906 0.66 0.903285
Target:  5'- gGCGCAGGCcgcgUCGAUCUgG-CGa--- -3'
miRNA:   3'- -CGCGUCCGca--AGCUAGAgCaGUaacu -5'
17143 5' -50.9 NC_004333.2 + 19472 0.66 0.902584
Target:  5'- gGCGUAGGCGUagCGcAUCagcagaaUCGUCAacugcgagUUGAa -3'
miRNA:   3'- -CGCGUCCGCAa-GC-UAG-------AGCAGU--------AACU- -5'
17143 5' -50.9 NC_004333.2 + 15880 0.66 0.895417
Target:  5'- uGCGCAGGCGUcggcgCGAUCgaacgcuUCGagAUcGAu -3'
miRNA:   3'- -CGCGUCCGCAa----GCUAG-------AGCagUAaCU- -5'
17143 5' -50.9 NC_004333.2 + 2514 0.66 0.888723
Target:  5'- cGCGCAGGUGUUCGccg-CGcCGUa-- -3'
miRNA:   3'- -CGCGUCCGCAAGCuagaGCaGUAacu -5'
17143 5' -50.9 NC_004333.2 + 42709 0.67 0.856293
Target:  5'- aGCGgGcGGCGUUCGAUCUgacCGaCAUgGAg -3'
miRNA:   3'- -CGCgU-CCGCAAGCUAGA---GCaGUAaCU- -5'
17143 5' -50.9 NC_004333.2 + 20843 0.67 0.852821
Target:  5'- aGCGCAGGCGUgUCGAcguUCaggcgcgcagccgCGUCGgcGAu -3'
miRNA:   3'- -CGCGUCCGCA-AGCU---AGa------------GCAGUaaCU- -5'
17143 5' -50.9 NC_004333.2 + 41375 0.67 0.847538
Target:  5'- cGCGcCGGGCGagcUCGGcCUCGUCGa--- -3'
miRNA:   3'- -CGC-GUCCGCa--AGCUaGAGCAGUaacu -5'
17143 5' -50.9 NC_004333.2 + 38353 0.68 0.800334
Target:  5'- cGCGCGuGCa-UCGAUCUCGUCGa--- -3'
miRNA:   3'- -CGCGUcCGcaAGCUAGAGCAGUaacu -5'
17143 5' -50.9 NC_004333.2 + 22020 0.68 0.790283
Target:  5'- cGCGCGGGCGUUU--UCUCGaCGcaGAu -3'
miRNA:   3'- -CGCGUCCGCAAGcuAGAGCaGUaaCU- -5'
17143 5' -50.9 NC_004333.2 + 2109 0.69 0.748437
Target:  5'- cGCGCGGGCGUcgacgUGAUCgaugCGgCcgUGAc -3'
miRNA:   3'- -CGCGUCCGCAa----GCUAGa---GCaGuaACU- -5'
17143 5' -50.9 NC_004333.2 + 30812 0.69 0.748437
Target:  5'- uGCGCAGGuUGUUCGAgacggUCgacaccgCGUCGUaGAa -3'
miRNA:   3'- -CGCGUCC-GCAAGCU-----AGa------GCAGUAaCU- -5'
17143 5' -50.9 NC_004333.2 + 15784 0.69 0.737628
Target:  5'- -aGCAGGuCGUgaUCGAUCUCGaagCGUUcGAu -3'
miRNA:   3'- cgCGUCC-GCA--AGCUAGAGCa--GUAA-CU- -5'
17143 5' -50.9 NC_004333.2 + 19940 0.69 0.737628
Target:  5'- aGCGCGGGCGUaaUCGGUCgcacucgCGcCAg--- -3'
miRNA:   3'- -CGCGUCCGCA--AGCUAGa------GCaGUaacu -5'
17143 5' -50.9 NC_004333.2 + 19848 0.7 0.715681
Target:  5'- cGCGCGGcacgaucccguGCGUUggagcggcCGAUCgCGUCGUUGAc -3'
miRNA:   3'- -CGCGUC-----------CGCAA--------GCUAGaGCAGUAACU- -5'
17143 5' -50.9 NC_004333.2 + 31362 0.7 0.693381
Target:  5'- gGCGCAGGUGcggcCGGUCUCGcCGgcaUGGu -3'
miRNA:   3'- -CGCGUCCGCaa--GCUAGAGCaGUa--ACU- -5'
17143 5' -50.9 NC_004333.2 + 23406 0.7 0.693381
Target:  5'- cGCGCAGGCGgccaagaaUUCGAUCaCGgucgCAggGAc -3'
miRNA:   3'- -CGCGUCCGC--------AAGCUAGaGCa---GUaaCU- -5'
17143 5' -50.9 NC_004333.2 + 2692 0.72 0.573198
Target:  5'- cGCGCcGGCGgcggccgacaggcCGAUCUCGUCGgcGAa -3'
miRNA:   3'- -CGCGuCCGCaa-----------GCUAGAGCAGUaaCU- -5'
17143 5' -50.9 NC_004333.2 + 11668 0.74 0.502617
Target:  5'- cGCGCAGGCGcUUC-AUUUCGUCGa--- -3'
miRNA:   3'- -CGCGUCCGC-AAGcUAGAGCAGUaacu -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.