miRNA display CGI


Results 1 - 20 of 60 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
33313 3' -54.6 NC_007605.1 + 59184 0.75 0.499652
Target:  5'- -cGGCGGUGG-GGCGG-GGAGGAc-- -3'
miRNA:   3'- cuCCGCCACCaUCGCCaCUUCCUuuu -5'
33313 3' -54.6 NC_007605.1 + 78495 0.68 0.876351
Target:  5'- gGAGGUGGUGGU-GCucucgGGUGccuuGGAGAAu -3'
miRNA:   3'- -CUCCGCCACCAuCG-----CCACuu--CCUUUU- -5'
33313 3' -54.6 NC_007605.1 + 64702 0.67 0.890536
Target:  5'- cGGGGUGG-GuGUAGgGGUGAcGGggGc -3'
miRNA:   3'- -CUCCGCCaC-CAUCgCCACUuCCuuUu -5'
33313 3' -54.6 NC_007605.1 + 49885 0.67 0.897277
Target:  5'- cGGGGCGGcGGUGGauGagaGGAGGggGAu -3'
miRNA:   3'- -CUCCGCCaCCAUCgcCa--CUUCCuuUU- -5'
33313 3' -54.6 NC_007605.1 + 117517 0.67 0.897277
Target:  5'- gGAGGUGaaGGUAGCcGUGGAGGGc-- -3'
miRNA:   3'- -CUCCGCcaCCAUCGcCACUUCCUuuu -5'
33313 3' -54.6 NC_007605.1 + 40158 0.67 0.921823
Target:  5'- aAGGCaGGgggGGgGGCaGUGAGGGAGGGg -3'
miRNA:   3'- cUCCG-CCa--CCaUCGcCACUUCCUUUU- -5'
33313 3' -54.6 NC_007605.1 + 171596 0.66 0.932616
Target:  5'- gGGGGgGGUGuUGGCGGgggcaUGggGGGGu- -3'
miRNA:   3'- -CUCCgCCACcAUCGCC-----ACuuCCUUuu -5'
33313 3' -54.6 NC_007605.1 + 59674 0.66 0.932616
Target:  5'- -uGGCGG-GGgcGUuugucccacgGGUGAGGGGGAAu -3'
miRNA:   3'- cuCCGCCaCCauCG----------CCACUUCCUUUU- -5'
33313 3' -54.6 NC_007605.1 + 105281 0.66 0.942421
Target:  5'- uGAGGUGcca-UAGCGGUGAAGGGc-- -3'
miRNA:   3'- -CUCCGCcaccAUCGCCACUUCCUuuu -5'
33313 3' -54.6 NC_007605.1 + 118218 0.69 0.848571
Target:  5'- aAGGUGGUagcguugguaauacgGGUaguagcacuGGUGGUGGAGGAGGAc -3'
miRNA:   3'- cUCCGCCA---------------CCA---------UCGCCACUUCCUUUU- -5'
33313 3' -54.6 NC_007605.1 + 63600 0.7 0.754864
Target:  5'- -cGGCGGcgccgggGGUGGCGGUGGAGu---- -3'
miRNA:   3'- cuCCGCCa------CCAUCGCCACUUCcuuuu -5'
33313 3' -54.6 NC_007605.1 + 91582 0.7 0.754864
Target:  5'- gGAGGaagaaaGGUGGgcuuugAGgGGUGggGGAAu- -3'
miRNA:   3'- -CUCCg-----CCACCa-----UCgCCACuuCCUUuu -5'
33313 3' -54.6 NC_007605.1 + 63089 0.74 0.569126
Target:  5'- -uGGCGGUcgccgggGGUGGCaGUGGAGGggGGa -3'
miRNA:   3'- cuCCGCCA-------CCAUCGcCACUUCCuuUU- -5'
33313 3' -54.6 NC_007605.1 + 57752 0.74 0.570154
Target:  5'- gGAGGCgGGUGGUGauUGGUGAGGGAu-- -3'
miRNA:   3'- -CUCCG-CCACCAUc-GCCACUUCCUuuu -5'
33313 3' -54.6 NC_007605.1 + 99906 0.72 0.639695
Target:  5'- -cGGUGGUGGaGGCGuaguccaggaggccGUGAAGGAGAGg -3'
miRNA:   3'- cuCCGCCACCaUCGC--------------CACUUCCUUUU- -5'
33313 3' -54.6 NC_007605.1 + 169606 0.72 0.673993
Target:  5'- cGGGCGGUGGaUGGCGGcgGAcguuccGGGGAu- -3'
miRNA:   3'- cUCCGCCACC-AUCGCCa-CU------UCCUUuu -5'
33313 3' -54.6 NC_007605.1 + 170143 0.72 0.673993
Target:  5'- cGGGCGGUGGaUGGCGGcgGAcguuccGGGGAu- -3'
miRNA:   3'- cUCCGCCACC-AUCGCCa-CU------UCCUUuu -5'
33313 3' -54.6 NC_007605.1 + 170665 0.72 0.673993
Target:  5'- cGGGCGGUGGaUGGCGGcgGAcguuccGGGGAu- -3'
miRNA:   3'- cUCCGCCACC-AUCGCCa-CU------UCCUUuu -5'
33313 3' -54.6 NC_007605.1 + 171203 0.72 0.673993
Target:  5'- cGGGCGGUGGaUGGCGGcgGAcguuccGGGGAu- -3'
miRNA:   3'- cUCCGCCACC-AUCGCCa-CU------UCCUUuu -5'
33313 3' -54.6 NC_007605.1 + 165714 0.71 0.735125
Target:  5'- -cGGgGGUGG--GCGGUGAucAGGGAGAa -3'
miRNA:   3'- cuCCgCCACCauCGCCACU--UCCUUUU- -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.