miRNA display CGI


Results 1 - 20 of 25 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
28814 5' -51.6 NC_006146.1 + 42749 0.66 0.992758
Target:  5'- uGCAUCGCcugcgGCAGCAGGGCcgacaGGUGc--- -3'
miRNA:   3'- gCGUAGUG-----UGUUGUUCCG-----CCACcaac -5'
28814 5' -51.6 NC_006146.1 + 30110 0.66 0.99168
Target:  5'- uCGCGaaauuuggCACACAgagcgcccccauGCAGGGgGGUGGg-- -3'
miRNA:   3'- -GCGUa-------GUGUGU------------UGUUCCgCCACCaac -5'
28814 5' -51.6 NC_006146.1 + 122957 0.66 0.990479
Target:  5'- aGCcuGUcCACGCAGCGggAGGCGGggaGGUg- -3'
miRNA:   3'- gCG--UA-GUGUGUUGU--UCCGCCa--CCAac -5'
28814 5' -51.6 NC_006146.1 + 6366 0.66 0.990479
Target:  5'- aGCGaagucUUACAauCAGCAccgGGGCGGUGGa-- -3'
miRNA:   3'- gCGU-----AGUGU--GUUGU---UCCGCCACCaac -5'
28814 5' -51.6 NC_006146.1 + 9896 0.66 0.990479
Target:  5'- aCGCAUgCACACGGCAugGGGCuGaGGUc- -3'
miRNA:   3'- -GCGUA-GUGUGUUGU--UCCGcCaCCAac -5'
28814 5' -51.6 NC_006146.1 + 51214 0.66 0.989145
Target:  5'- gGCAUC-CACGAggcCGGGGUGGcgGGUg- -3'
miRNA:   3'- gCGUAGuGUGUU---GUUCCGCCa-CCAac -5'
28814 5' -51.6 NC_006146.1 + 69902 0.66 0.989145
Target:  5'- -uCAUCggGCGCAGCAGGaUGGUGGUUu -3'
miRNA:   3'- gcGUAG--UGUGUUGUUCcGCCACCAAc -5'
28814 5' -51.6 NC_006146.1 + 112208 0.66 0.987671
Target:  5'- aGUAUUGUugGACAGGGUggcggccugGGUGGUUGc -3'
miRNA:   3'- gCGUAGUGugUUGUUCCG---------CCACCAAC- -5'
28814 5' -51.6 NC_006146.1 + 61813 0.66 0.987671
Target:  5'- gCGCGccgGCACGGCAcGGGCGG-GGUg- -3'
miRNA:   3'- -GCGUag-UGUGUUGU-UCCGCCaCCAac -5'
28814 5' -51.6 NC_006146.1 + 27348 0.67 0.986046
Target:  5'- gCGgGUgGCGCGGCAAGGcCGGgGGg-- -3'
miRNA:   3'- -GCgUAgUGUGUUGUUCC-GCCaCCaac -5'
28814 5' -51.6 NC_006146.1 + 123080 0.67 0.986046
Target:  5'- cCGCGcUCugGCAGCccgagcccaugaGAcGGCGGUGGg-- -3'
miRNA:   3'- -GCGU-AGugUGUUG------------UU-CCGCCACCaac -5'
28814 5' -51.6 NC_006146.1 + 109209 0.67 0.986046
Target:  5'- gGCAUCAgAgcGCAGGuGUGGUGGg-- -3'
miRNA:   3'- gCGUAGUgUguUGUUC-CGCCACCaac -5'
28814 5' -51.6 NC_006146.1 + 65901 0.67 0.980182
Target:  5'- gGCA-CGCugAugGagaaauGGGCGGUcGGUUGa -3'
miRNA:   3'- gCGUaGUGugUugU------UCCGCCA-CCAAC- -5'
28814 5' -51.6 NC_006146.1 + 108619 0.68 0.97536
Target:  5'- gGgGUC-CGCG--GAGGCGGUGGUg- -3'
miRNA:   3'- gCgUAGuGUGUugUUCCGCCACCAac -5'
28814 5' -51.6 NC_006146.1 + 101866 0.68 0.966602
Target:  5'- aCGgGUgGCGgGGCGAGGaCGGUGGcgGg -3'
miRNA:   3'- -GCgUAgUGUgUUGUUCC-GCCACCaaC- -5'
28814 5' -51.6 NC_006146.1 + 99607 0.68 0.959663
Target:  5'- aGCGgaggaagCACACAACugcccacGGGUGGUGGa-- -3'
miRNA:   3'- gCGUa------GUGUGUUGu------UCCGCCACCaac -5'
28814 5' -51.6 NC_006146.1 + 36288 0.69 0.955846
Target:  5'- uGCuuggauUCAC-CAGCAAGGCGGcUGGc-- -3'
miRNA:   3'- gCGu-----AGUGuGUUGUUCCGCC-ACCaac -5'
28814 5' -51.6 NC_006146.1 + 53870 0.69 0.954253
Target:  5'- uGCAUCAacaccuacugggaGCGGCGGGGCGGcUGGc-- -3'
miRNA:   3'- gCGUAGUg------------UGUUGUUCCGCC-ACCaac -5'
28814 5' -51.6 NC_006146.1 + 11375 0.7 0.927823
Target:  5'- gCGCGUCAgGCAGguGGGCaagcuGGUGGa-- -3'
miRNA:   3'- -GCGUAGUgUGUUguUCCG-----CCACCaac -5'
28814 5' -51.6 NC_006146.1 + 106409 0.72 0.861305
Target:  5'- uGCcacgGUCcgcCACAACAAGGUGGUGGa-- -3'
miRNA:   3'- gCG----UAGu--GUGUUGUUCCGCCACCaac -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.