miRNA display CGI


Results 1 - 20 of 29 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
23349 3' -55.4 NC_005259.1 + 32007 0.66 0.776943
Target:  5'- -gGGUAUCGCGAcGGGagGCAaguuccCCGGCu -3'
miRNA:   3'- caCCGUAGCGCU-CUUagUGU------GGCCGc -5'
23349 3' -55.4 NC_005259.1 + 67985 0.66 0.776943
Target:  5'- cGUGGCcaccgcCGCGAGcGUCGacuugcccucCugCGGCGg -3'
miRNA:   3'- -CACCGua----GCGCUCuUAGU----------GugGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 41997 0.66 0.776943
Target:  5'- -cGGCG--GUGAGGAcCACACCguGGCGa -3'
miRNA:   3'- caCCGUagCGCUCUUaGUGUGG--CCGC- -5'
23349 3' -55.4 NC_005259.1 + 27902 0.66 0.767013
Target:  5'- cUGGgGUCGcCGAGAc-CGCGCgGGUGg -3'
miRNA:   3'- cACCgUAGC-GCUCUuaGUGUGgCCGC- -5'
23349 3' -55.4 NC_005259.1 + 41786 0.66 0.767013
Target:  5'- -cGGCAUCgGCGAGcAGUCG-GCaGGCGg -3'
miRNA:   3'- caCCGUAG-CGCUC-UUAGUgUGgCCGC- -5'
23349 3' -55.4 NC_005259.1 + 40059 0.66 0.766013
Target:  5'- -gGGUcgGUCGCGAugacccaugggccGAcgCGCACCGaGCGc -3'
miRNA:   3'- caCCG--UAGCGCU-------------CUuaGUGUGGC-CGC- -5'
23349 3' -55.4 NC_005259.1 + 25528 0.66 0.756949
Target:  5'- cGUGGCAUCGCGuGggU---GCUGGg- -3'
miRNA:   3'- -CACCGUAGCGCuCuuAgugUGGCCgc -5'
23349 3' -55.4 NC_005259.1 + 53681 0.66 0.756949
Target:  5'- -gGGCAUCGCGAuGGU-GCgACCGGUc -3'
miRNA:   3'- caCCGUAGCGCUcUUAgUG-UGGCCGc -5'
23349 3' -55.4 NC_005259.1 + 5073 0.66 0.746761
Target:  5'- -gGGCcggGUCGaCGGGccGGUguCACCGGCGa -3'
miRNA:   3'- caCCG---UAGC-GCUC--UUAguGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 12990 0.66 0.746761
Target:  5'- cGUGGUGcUCGCGu---UCGCACuCGGCu -3'
miRNA:   3'- -CACCGU-AGCGCucuuAGUGUG-GCCGc -5'
23349 3' -55.4 NC_005259.1 + 19860 0.66 0.736461
Target:  5'- uGUGGCGcUCGCGcccgccGGGAUCGCcgacGCCGcGCc -3'
miRNA:   3'- -CACCGU-AGCGC------UCUUAGUG----UGGC-CGc -5'
23349 3' -55.4 NC_005259.1 + 2010 0.66 0.736461
Target:  5'- -cGGcCAUCGgGuGg--CGCACCGGCa -3'
miRNA:   3'- caCC-GUAGCgCuCuuaGUGUGGCCGc -5'
23349 3' -55.4 NC_005259.1 + 55862 0.67 0.730231
Target:  5'- cGUGGUGaacucgccgagcgccUCGCcccgaccucGGGggUCGCGCCGGgGu -3'
miRNA:   3'- -CACCGU---------------AGCG---------CUCuuAGUGUGGCCgC- -5'
23349 3' -55.4 NC_005259.1 + 41551 0.67 0.715565
Target:  5'- -aGuCGUCGCGAGcGUUACACCGcCGg -3'
miRNA:   3'- caCcGUAGCGCUCuUAGUGUGGCcGC- -5'
23349 3' -55.4 NC_005259.1 + 14557 0.67 0.714511
Target:  5'- -cGGCAggccgaGCGGGGAccggcgaacaccaUCGCGCUGGCc -3'
miRNA:   3'- caCCGUag----CGCUCUU-------------AGUGUGGCCGc -5'
23349 3' -55.4 NC_005259.1 + 54088 0.67 0.704992
Target:  5'- gGUGGCGUCGCGcau----CACCGGgGu -3'
miRNA:   3'- -CACCGUAGCGCucuuaguGUGGCCgC- -5'
23349 3' -55.4 NC_005259.1 + 24076 0.68 0.672902
Target:  5'- -cGuGCAcCGCGAGAu---CACCGGCa -3'
miRNA:   3'- caC-CGUaGCGCUCUuaguGUGGCCGc -5'
23349 3' -55.4 NC_005259.1 + 23706 0.68 0.672902
Target:  5'- --cGCGUCGUGA---UCGCGCCGGaCGg -3'
miRNA:   3'- cacCGUAGCGCUcuuAGUGUGGCC-GC- -5'
23349 3' -55.4 NC_005259.1 + 61741 0.68 0.663197
Target:  5'- gGUGuGCGUCcgGCGAGAucugugcggcggcaAUCaccgccgcauucugcACACCGGCGg -3'
miRNA:   3'- -CAC-CGUAG--CGCUCU--------------UAG---------------UGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 65104 0.68 0.655632
Target:  5'- cGUGGCAcggucagUGCGucaccgucggCGCACCGGCGg -3'
miRNA:   3'- -CACCGUa------GCGCucuua-----GUGUGGCCGC- -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.