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
28469 3' -44.8 NC_005946.1 + 16408 0.67 0.999783
Target:  5'- aGUCGCACAG-GUAGGC--UUGgAUCa -3'
miRNA:   3'- -CGGUGUGUCuCAUUCGuaAAUgUAGg -5'
28469 3' -44.8 NC_005946.1 + 75912 0.66 0.999972
Target:  5'- gGCCgu-CAGGGUGGGCGU---CAUCUc -3'
miRNA:   3'- -CGGuguGUCUCAUUCGUAaauGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 3622 0.66 0.999972
Target:  5'- cGCCaggGCGuCAGAGUcuauGGuCAUggggGCGUCCg -3'
miRNA:   3'- -CGG---UGU-GUCUCAu---UC-GUAaa--UGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 58359 0.66 0.999947
Target:  5'- aUCAcCGCGGGGUAGGUc---ACGUCCc -3'
miRNA:   3'- cGGU-GUGUCUCAUUCGuaaaUGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 97693 0.66 0.999929
Target:  5'- uCUGCAgCAGGG-AGGCAggaccgGCAUCCu -3'
miRNA:   3'- cGGUGU-GUCUCaUUCGUaaa---UGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 44909 0.66 0.999929
Target:  5'- cGCCACAgAG-GUAgauguGGCcgUUcUAUCCa -3'
miRNA:   3'- -CGGUGUgUCuCAU-----UCGuaAAuGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 89641 0.67 0.999915
Target:  5'- uGCCACGuCGGAagaccuuucccucuuGUGAGCAgcgGCAUggcCCa -3'
miRNA:   3'- -CGGUGU-GUCU---------------CAUUCGUaaaUGUA---GG- -5'
28469 3' -44.8 NC_005946.1 + 49205 0.67 0.999904
Target:  5'- aGCCucCACAGGGUcugaGGGUAcaugGCGUCUa -3'
miRNA:   3'- -CGGu-GUGUCUCA----UUCGUaaa-UGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 5234 0.67 0.999887
Target:  5'- uCCACACGGcucgcAGUAugcgucguuaucaucGGCccggguGUUUACGUCCa -3'
miRNA:   3'- cGGUGUGUC-----UCAU---------------UCG------UAAAUGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 26898 0.67 0.999873
Target:  5'- aGCCGgcggcCACGGAGgcGGCGU--ACG-CCa -3'
miRNA:   3'- -CGGU-----GUGUCUCauUCGUAaaUGUaGG- -5'
28469 3' -44.8 NC_005946.1 + 61128 0.67 0.999783
Target:  5'- gGCCACGgccaAGAgGUGAGCGUUgcGCAcCCc -3'
miRNA:   3'- -CGGUGUg---UCU-CAUUCGUAAa-UGUaGG- -5'
28469 3' -44.8 NC_005946.1 + 42619 0.77 0.877629
Target:  5'- cCCcCACAGAGUGAGCGgcgGCggCCg -3'
miRNA:   3'- cGGuGUGUCUCAUUCGUaaaUGuaGG- -5'
28469 3' -44.8 NC_005946.1 + 13834 0.68 0.99972
Target:  5'- aGCCACGCAGAcuGUGAGag-----AUCCg -3'
miRNA:   3'- -CGGUGUGUCU--CAUUCguaaaugUAGG- -5'
28469 3' -44.8 NC_005946.1 + 44780 0.68 0.999542
Target:  5'- uCCAagaACAGGG-AGGCcGUUUACAUCg -3'
miRNA:   3'- cGGUg--UGUCUCaUUCG-UAAAUGUAGg -5'
28469 3' -44.8 NC_005946.1 + 10606 0.68 0.999275
Target:  5'- gGCCAC-CAGAG-AGGCGgaaaAgAUCCu -3'
miRNA:   3'- -CGGUGuGUCUCaUUCGUaaa-UgUAGG- -5'
28469 3' -44.8 NC_005946.1 + 65531 0.69 0.999096
Target:  5'- gGCCACGCAGAcaccgccgcggcGUAGGaagaguCGUCCc -3'
miRNA:   3'- -CGGUGUGUCU------------CAUUCguaaauGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 79752 0.7 0.997535
Target:  5'- aGCCucuCGuCGGAG-GAGCAUUUGCAacucuuuaggauUCCg -3'
miRNA:   3'- -CGGu--GU-GUCUCaUUCGUAAAUGU------------AGG- -5'
28469 3' -44.8 NC_005946.1 + 101651 0.7 0.997535
Target:  5'- uCC-CACGGAGUGAGCGUcccccuucUGCA-CCg -3'
miRNA:   3'- cGGuGUGUCUCAUUCGUAa-------AUGUaGG- -5'
28469 3' -44.8 NC_005946.1 + 69896 0.7 0.997041
Target:  5'- cUCAUACGGAGUGgccuccagGGCcucgGCGUCCa -3'
miRNA:   3'- cGGUGUGUCUCAU--------UCGuaaaUGUAGG- -5'
28469 3' -44.8 NC_005946.1 + 55018 0.71 0.995439
Target:  5'- uGCCACgGCAGAGaaggagcgcaagGAGCGUgagcagcagcaaccgGCAUCCa -3'
miRNA:   3'- -CGGUG-UGUCUCa-----------UUCGUAaa-------------UGUAGG- -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.