miRNA display CGI


Results 1 - 20 of 80 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
31076 3' -60.5 NC_006560.1 + 539 0.66 0.691256
Target:  5'- cGGCCGCgCC-CCGGgUCCccggCGUCCc- -3'
miRNA:   3'- -UCGGCGaGGuGGUCgAGGa---GCAGGuc -5'
31076 3' -60.5 NC_006560.1 + 1088 0.68 0.561998
Target:  5'- aAGCCGC-CCGCCAgGCUCCcCGg-CGGc -3'
miRNA:   3'- -UCGGCGaGGUGGU-CGAGGaGCagGUC- -5'
31076 3' -60.5 NC_006560.1 + 1904 0.71 0.43476
Target:  5'- cGCCgGCUaccaguccucggcggCCGCCGGCUCgC-CGUCCGGg -3'
miRNA:   3'- uCGG-CGA---------------GGUGGUCGAG-GaGCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 2931 0.67 0.611574
Target:  5'- gGGCgGgggagacgCCGCCgAGCUCCUCG-CCGGg -3'
miRNA:   3'- -UCGgCga------GGUGG-UCGAGGAGCaGGUC- -5'
31076 3' -60.5 NC_006560.1 + 4900 0.66 0.710868
Target:  5'- gGGCCGCgUCgCGCUcgGGgUCCggGUCCGGg -3'
miRNA:   3'- -UCGGCG-AG-GUGG--UCgAGGagCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 5062 0.7 0.448908
Target:  5'- cGCgaGCUCCGCgAGCUCgUCG-CCGGc -3'
miRNA:   3'- uCGg-CGAGGUGgUCGAGgAGCaGGUC- -5'
31076 3' -60.5 NC_006560.1 + 5329 0.68 0.581731
Target:  5'- cGGCCcCUCCGgguCCGGCgUCCucggcgggccgUCGUCCGGg -3'
miRNA:   3'- -UCGGcGAGGU---GGUCG-AGG-----------AGCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 6447 0.77 0.186588
Target:  5'- cGCCGCcgCCGCCGGCccUCCUCGcUCCGc -3'
miRNA:   3'- uCGGCGa-GGUGGUCG--AGGAGC-AGGUc -5'
31076 3' -60.5 NC_006560.1 + 9917 0.67 0.62156
Target:  5'- cGCCGCaCUGCCAggcGCUCC--GUCCAGa -3'
miRNA:   3'- uCGGCGaGGUGGU---CGAGGagCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 11924 0.71 0.414033
Target:  5'- aAGCCGCgggCCcgcaggagggGCCGGCgggCCagGUCCAGg -3'
miRNA:   3'- -UCGGCGa--GG----------UGGUCGa--GGagCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 12648 0.71 0.431264
Target:  5'- cGGCCGCcccggCCACCAGCcCCgCG-CCGGc -3'
miRNA:   3'- -UCGGCGa----GGUGGUCGaGGaGCaGGUC- -5'
31076 3' -60.5 NC_006560.1 + 16433 0.66 0.70109
Target:  5'- cGCCgGCUCCcuuuuguacgggGCCGcGCUCCUCGaCCc- -3'
miRNA:   3'- uCGG-CGAGG------------UGGU-CGAGGAGCaGGuc -5'
31076 3' -60.5 NC_006560.1 + 17189 0.7 0.448908
Target:  5'- aGGCCGC-CCACCgGGCgCa-CGUCCAGg -3'
miRNA:   3'- -UCGGCGaGGUGG-UCGaGgaGCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 17516 0.69 0.513573
Target:  5'- gGGCCgGCggcgCCGCCGucgucgucguccGCccCCUCGUCCGGg -3'
miRNA:   3'- -UCGG-CGa---GGUGGU------------CGa-GGAGCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 19983 0.68 0.601602
Target:  5'- cGCCGCagguacggcaggUCCG--GGCUCCacUCGUCCGGg -3'
miRNA:   3'- uCGGCG------------AGGUggUCGAGG--AGCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 20969 0.69 0.523133
Target:  5'- cGGCCGCggcgCCGCCGGCUUUaUGUCggCGGg -3'
miRNA:   3'- -UCGGCGa---GGUGGUCGAGGaGCAG--GUC- -5'
31076 3' -60.5 NC_006560.1 + 23739 0.66 0.710868
Target:  5'- aGGCCGCcgucgCCGCCGuGCgcgccgugggCCUCGUcgCCGGc -3'
miRNA:   3'- -UCGGCGa----GGUGGU-CGa---------GGAGCA--GGUC- -5'
31076 3' -60.5 NC_006560.1 + 23833 0.67 0.651534
Target:  5'- cGCCGCcgCCGCCGaccuGCUCUUcCGgaaCCAGa -3'
miRNA:   3'- uCGGCGa-GGUGGU----CGAGGA-GCa--GGUC- -5'
31076 3' -60.5 NC_006560.1 + 24675 0.69 0.504086
Target:  5'- cGCCGCcggCCGCCGcCUCgUCGUCguGg -3'
miRNA:   3'- uCGGCGa--GGUGGUcGAGgAGCAGguC- -5'
31076 3' -60.5 NC_006560.1 + 30713 0.67 0.661507
Target:  5'- cGGCCGCgagCCGCCAuGCcCCgcccaccCGcCCAGg -3'
miRNA:   3'- -UCGGCGa--GGUGGU-CGaGGa------GCaGGUC- -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.