miRNA display CGI


Results 1 - 20 of 71 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
29557 3' -56.8 NC_006151.1 + 85799 0.8 0.19125
Target:  5'- --gCGCGCGcGUGCAGCGCCA-CCAGc -3'
miRNA:   3'- ugaGCGCGCaCAUGUCGCGGUaGGUC- -5'
29557 3' -56.8 NC_006151.1 + 115601 0.74 0.413114
Target:  5'- aGCUCGCGCGUGgccCAGCG-CGUCUg- -3'
miRNA:   3'- -UGAGCGCGCACau-GUCGCgGUAGGuc -5'
29557 3' -56.8 NC_006151.1 + 20864 0.73 0.458107
Target:  5'- uACUCGCGCGUGUaGCAggcGCGCUugggGUCgAGg -3'
miRNA:   3'- -UGAGCGCGCACA-UGU---CGCGG----UAGgUC- -5'
29557 3' -56.8 NC_006151.1 + 64935 0.73 0.486326
Target:  5'- uACUCGCGCGU---CAGCGCCuggCCGc -3'
miRNA:   3'- -UGAGCGCGCAcauGUCGCGGua-GGUc -5'
29557 3' -56.8 NC_006151.1 + 102939 0.73 0.495915
Target:  5'- gGCUgCGCGCGcUGgacGCGGCGCCcgCCGc -3'
miRNA:   3'- -UGA-GCGCGC-ACa--UGUCGCGGuaGGUc -5'
29557 3' -56.8 NC_006151.1 + 69643 0.73 0.495915
Target:  5'- --cCGCGCGU--GCGGCGCCG-CCGGg -3'
miRNA:   3'- ugaGCGCGCAcaUGUCGCGGUaGGUC- -5'
29557 3' -56.8 NC_006151.1 + 69880 0.71 0.565136
Target:  5'- aGCUCGCGCGcgcccacgcGCAGCGCCG-CCGu -3'
miRNA:   3'- -UGAGCGCGCaca------UGUCGCGGUaGGUc -5'
29557 3' -56.8 NC_006151.1 + 102812 0.71 0.585425
Target:  5'- cGCggCGCGCa-GUACAGCGCCAaggCCAu -3'
miRNA:   3'- -UGa-GCGCGcaCAUGUCGCGGUa--GGUc -5'
29557 3' -56.8 NC_006151.1 + 83767 0.71 0.585425
Target:  5'- gGCUCGgGCacGUACAGCGCCccgCCGa -3'
miRNA:   3'- -UGAGCgCGcaCAUGUCGCGGua-GGUc -5'
29557 3' -56.8 NC_006151.1 + 96558 0.71 0.595623
Target:  5'- cACggCGCGCGUGauaaACAGCGCCG-CCu- -3'
miRNA:   3'- -UGa-GCGCGCACa---UGUCGCGGUaGGuc -5'
29557 3' -56.8 NC_006151.1 + 77222 0.71 0.604825
Target:  5'- cGC-CGCGUGUGUGCgccgggaGGCGCCccCCGGc -3'
miRNA:   3'- -UGaGCGCGCACAUG-------UCGCGGuaGGUC- -5'
29557 3' -56.8 NC_006151.1 + 96326 0.7 0.632508
Target:  5'- gGC-CGCGCGcGUAgAGCGCCGgguaggccucccgCCAGa -3'
miRNA:   3'- -UGaGCGCGCaCAUgUCGCGGUa------------GGUC- -5'
29557 3' -56.8 NC_006151.1 + 8820 0.7 0.636613
Target:  5'- uCUcCGCGUGUGUGCGcGCGCCucUCCc- -3'
miRNA:   3'- uGA-GCGCGCACAUGU-CGCGGu-AGGuc -5'
29557 3' -56.8 NC_006151.1 + 130727 0.7 0.636613
Target:  5'- gGCcCGCGCGgccgcgGcGCAGCGCCAcCCAc -3'
miRNA:   3'- -UGaGCGCGCa-----CaUGUCGCGGUaGGUc -5'
29557 3' -56.8 NC_006151.1 + 139589 0.7 0.646871
Target:  5'- gGCUCGCGCccccccgaGCGGCGgcCCGUCCGGg -3'
miRNA:   3'- -UGAGCGCGcaca----UGUCGC--GGUAGGUC- -5'
29557 3' -56.8 NC_006151.1 + 130791 0.7 0.657117
Target:  5'- -gUCGCGCGUccagcuggcGUAC-GCGgCGUCCGGg -3'
miRNA:   3'- ugAGCGCGCA---------CAUGuCGCgGUAGGUC- -5'
29557 3' -56.8 NC_006151.1 + 94752 0.7 0.666322
Target:  5'- cACUCGCGCGgaaACAgGCGCCGcagcgucUCCAu -3'
miRNA:   3'- -UGAGCGCGCacaUGU-CGCGGU-------AGGUc -5'
29557 3' -56.8 NC_006151.1 + 71813 0.7 0.667344
Target:  5'- aGCUCGCGCGU----GGCGCUGcCCAGc -3'
miRNA:   3'- -UGAGCGCGCAcaugUCGCGGUaGGUC- -5'
29557 3' -56.8 NC_006151.1 + 94041 0.69 0.677541
Target:  5'- cGCUCGCGCGcc-GCGGCGUCG-CCGc -3'
miRNA:   3'- -UGAGCGCGCacaUGUCGCGGUaGGUc -5'
29557 3' -56.8 NC_006151.1 + 64000 0.69 0.677541
Target:  5'- uCUgCGUGCG-GUGCGGCGCCAggcgCCc- -3'
miRNA:   3'- uGA-GCGCGCaCAUGUCGCGGUa---GGuc -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.