miRNA display CGI


Results 1 - 20 of 22 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
30413 5' -56.1 NC_006548.1 + 5625 0.66 0.527077
Target:  5'- gGCCCGgcCUGGCCugcgcguaguaggaGGCAAC-UGAUGc -3'
miRNA:   3'- -UGGGC--GACCGGuag-----------CCGUUGuACUAC- -5'
30413 5' -56.1 NC_006548.1 + 22388 0.67 0.49788
Target:  5'- gACgCGCUGGCCAcCGcGCAGaccGAUGu -3'
miRNA:   3'- -UGgGCGACCGGUaGC-CGUUguaCUAC- -5'
30413 5' -56.1 NC_006548.1 + 30845 0.67 0.496812
Target:  5'- uCCCGCUgggcugcGGCCGUUaugcgGGCAGCAgUGAa- -3'
miRNA:   3'- uGGGCGA-------CCGGUAG-----CCGUUGU-ACUac -5'
30413 5' -56.1 NC_006548.1 + 12268 0.67 0.487249
Target:  5'- uGCCCGCUcGcCCGUCGGCGcACAgGGc- -3'
miRNA:   3'- -UGGGCGAcC-GGUAGCCGU-UGUaCUac -5'
30413 5' -56.1 NC_006548.1 + 27258 0.67 0.487249
Target:  5'- cGCCUGCUGGaCGcgagcacgcUCGGCAuuGUGAUa -3'
miRNA:   3'- -UGGGCGACCgGU---------AGCCGUugUACUAc -5'
30413 5' -56.1 NC_006548.1 + 30603 0.67 0.476727
Target:  5'- aACCUGC-GGCCGUUGGCGAa--GAa- -3'
miRNA:   3'- -UGGGCGaCCGGUAGCCGUUguaCUac -5'
30413 5' -56.1 NC_006548.1 + 8338 0.67 0.466319
Target:  5'- gAUCCGCaugggccugGGCUAUCuGCAGCAUGcUGa -3'
miRNA:   3'- -UGGGCGa--------CCGGUAGcCGUUGUACuAC- -5'
30413 5' -56.1 NC_006548.1 + 17100 0.67 0.456029
Target:  5'- cACCC-CcGGCCGUCugGGCAACgAUGAUu -3'
miRNA:   3'- -UGGGcGaCCGGUAG--CCGUUG-UACUAc -5'
30413 5' -56.1 NC_006548.1 + 35885 0.67 0.445863
Target:  5'- gAUCCGCgcGGCC---GGCGGCGUGAUa -3'
miRNA:   3'- -UGGGCGa-CCGGuagCCGUUGUACUAc -5'
30413 5' -56.1 NC_006548.1 + 9439 0.67 0.445863
Target:  5'- aGCUCGC-GGCUAcuugcguccgcUCGGCAACAUGc-- -3'
miRNA:   3'- -UGGGCGaCCGGU-----------AGCCGUUGUACuac -5'
30413 5' -56.1 NC_006548.1 + 35850 0.68 0.425919
Target:  5'- gUUCGCcGuGCCGUCGaGCGAUGUGAUGc -3'
miRNA:   3'- uGGGCGaC-CGGUAGC-CGUUGUACUAC- -5'
30413 5' -56.1 NC_006548.1 + 22681 0.68 0.406515
Target:  5'- cGCCaCGCUGGCgAUCGaGCAGCu----- -3'
miRNA:   3'- -UGG-GCGACCGgUAGC-CGUUGuacuac -5'
30413 5' -56.1 NC_006548.1 + 30336 0.69 0.369419
Target:  5'- cGCCC-CUGGCCugggCGGCAccgacgccaucuACAUGggGa -3'
miRNA:   3'- -UGGGcGACCGGua--GCCGU------------UGUACuaC- -5'
30413 5' -56.1 NC_006548.1 + 21193 0.69 0.360514
Target:  5'- gGCgCCGCUGGCacguUUGGCGA--UGAUGa -3'
miRNA:   3'- -UG-GGCGACCGgu--AGCCGUUguACUAC- -5'
30413 5' -56.1 NC_006548.1 + 22156 0.69 0.343158
Target:  5'- uCCUGCaggaaGGCCAUCGGCAcCAUGc-- -3'
miRNA:   3'- uGGGCGa----CCGGUAGCCGUuGUACuac -5'
30413 5' -56.1 NC_006548.1 + 33820 0.69 0.343158
Target:  5'- -aUCGcCUGGCCAUCGGCGACc----- -3'
miRNA:   3'- ugGGC-GACCGGUAGCCGUUGuacuac -5'
30413 5' -56.1 NC_006548.1 + 17341 0.7 0.318269
Target:  5'- uCCCGCUcGGCC-UUGGCG--GUGAUGu -3'
miRNA:   3'- uGGGCGA-CCGGuAGCCGUugUACUAC- -5'
30413 5' -56.1 NC_006548.1 + 23801 0.7 0.302444
Target:  5'- aGCCCGCcGGCCAUgcCGGUGGCGcGAc- -3'
miRNA:   3'- -UGGGCGaCCGGUA--GCCGUUGUaCUac -5'
30413 5' -56.1 NC_006548.1 + 25926 0.72 0.238734
Target:  5'- gGCCCGCgcgGGCCAgcaggCGGUGACAUc--- -3'
miRNA:   3'- -UGGGCGa--CCGGUa----GCCGUUGUAcuac -5'
30413 5' -56.1 NC_006548.1 + 23186 0.73 0.202788
Target:  5'- cACCaggaCGUUcGGCCAgcucCGGCAGCGUGAUGu -3'
miRNA:   3'- -UGG----GCGA-CCGGUa---GCCGUUGUACUAC- -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.