miRNA display CGI


Results 1 - 20 of 31 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
30444 5' -58.3 NC_006548.1 + 36251 0.66 0.477307
Target:  5'- uUCGGCGgcUGGA-CugC-GGaCGUCCCg -3'
miRNA:   3'- cAGCCGU--ACCUaGugGuCCgGCAGGG- -5'
30444 5' -58.3 NC_006548.1 + 5055 0.66 0.477307
Target:  5'- -gCGGCgcaggGUGGAuUUACCGGcGCCGgacucaCCCa -3'
miRNA:   3'- caGCCG-----UACCU-AGUGGUC-CGGCa-----GGG- -5'
30444 5' -58.3 NC_006548.1 + 4257 0.66 0.467173
Target:  5'- cGUCGGUGcucGAUCGCC-GGCUGUUCa -3'
miRNA:   3'- -CAGCCGUac-CUAGUGGuCCGGCAGGg -5'
30444 5' -58.3 NC_006548.1 + 14483 0.66 0.467173
Target:  5'- --gGGCAcGGAUCAgCuuGGCCGcCUCg -3'
miRNA:   3'- cagCCGUaCCUAGUgGu-CCGGCaGGG- -5'
30444 5' -58.3 NC_006548.1 + 20399 0.66 0.457152
Target:  5'- -gCGGCGcaGGAUCucggUCAGaGCCGUCaCCg -3'
miRNA:   3'- caGCCGUa-CCUAGu---GGUC-CGGCAG-GG- -5'
30444 5' -58.3 NC_006548.1 + 31716 0.66 0.447247
Target:  5'- -cCGGC--GGGUCAUCGGGCCaggCCg -3'
miRNA:   3'- caGCCGuaCCUAGUGGUCCGGca-GGg -5'
30444 5' -58.3 NC_006548.1 + 30514 0.66 0.447247
Target:  5'- -cUGGCAUGGA--ACCAG-CCGaugCCCu -3'
miRNA:   3'- caGCCGUACCUagUGGUCcGGCa--GGG- -5'
30444 5' -58.3 NC_006548.1 + 21181 0.67 0.418269
Target:  5'- -aUGGCAgcucGGAcgGCCuGGCCG-CCCa -3'
miRNA:   3'- caGCCGUa---CCUagUGGuCCGGCaGGG- -5'
30444 5' -58.3 NC_006548.1 + 20157 0.67 0.417323
Target:  5'- uUCGGUGUaccugccGGAcUCACCAGGCaacccgGUUCCg -3'
miRNA:   3'- cAGCCGUA-------CCU-AGUGGUCCGg-----CAGGG- -5'
30444 5' -58.3 NC_006548.1 + 25168 0.67 0.408867
Target:  5'- uUCGGgGUgcaGGAUCugCAGGUCaUCCg -3'
miRNA:   3'- cAGCCgUA---CCUAGugGUCCGGcAGGg -5'
30444 5' -58.3 NC_006548.1 + 20072 0.67 0.408867
Target:  5'- -aCGGCAUGcucuaugccGAgccgCACCAGGUgGUgCCg -3'
miRNA:   3'- caGCCGUAC---------CUa---GUGGUCCGgCAgGG- -5'
30444 5' -58.3 NC_006548.1 + 16091 0.67 0.408867
Target:  5'- cGUCGGCAUGGccGUCAgCAGuGCgcUCCg -3'
miRNA:   3'- -CAGCCGUACC--UAGUgGUC-CGgcAGGg -5'
30444 5' -58.3 NC_006548.1 + 5313 0.67 0.381466
Target:  5'- cUCGGCGuUGGcgCGCCGGGgC-UCCa -3'
miRNA:   3'- cAGCCGU-ACCuaGUGGUCCgGcAGGg -5'
30444 5' -58.3 NC_006548.1 + 33963 0.67 0.381466
Target:  5'- uGUCGGCAcUGGccUgGCCGGucaugcGCCGUCCa -3'
miRNA:   3'- -CAGCCGU-ACCu-AgUGGUC------CGGCAGGg -5'
30444 5' -58.3 NC_006548.1 + 21041 0.67 0.376134
Target:  5'- -gCGGCAggcUGGA-CGCCauaucagcacgaccgAGGCCGUuaCCCa -3'
miRNA:   3'- caGCCGU---ACCUaGUGG---------------UCCGGCA--GGG- -5'
30444 5' -58.3 NC_006548.1 + 29727 0.68 0.363892
Target:  5'- uUCGGCuucgccgaGGGUgGCCAGGuCCGUggUCCa -3'
miRNA:   3'- cAGCCGua------CCUAgUGGUCC-GGCA--GGG- -5'
30444 5' -58.3 NC_006548.1 + 1983 0.68 0.346886
Target:  5'- -gCGGCugcaccaggGGAUCgggcACCAGGCCGUggCUCg -3'
miRNA:   3'- caGCCGua-------CCUAG----UGGUCCGGCA--GGG- -5'
30444 5' -58.3 NC_006548.1 + 17150 0.68 0.321669
Target:  5'- -aCGGCcgGGGgugcccuggguacUCGCCAccuGGCCGagCCCg -3'
miRNA:   3'- caGCCGuaCCU-------------AGUGGU---CCGGCa-GGG- -5'
30444 5' -58.3 NC_006548.1 + 16125 0.69 0.314609
Target:  5'- -gCaGCAUGGAUCGCCAGaCCcagcgCCCa -3'
miRNA:   3'- caGcCGUACCUAGUGGUCcGGca---GGG- -5'
30444 5' -58.3 NC_006548.1 + 24168 0.69 0.306903
Target:  5'- -cCGGCAUGacgUACCAGGCCGgugCUg -3'
miRNA:   3'- caGCCGUACcuaGUGGUCCGGCa--GGg -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.