miRNA display CGI


Results 1 - 20 of 30 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
2949 3' -57.1 NC_001493.1 + 70495 1.12 0.001495
Target:  5'- aGCCUCGGGUCGGUCACGUACGAGGACg -3'
miRNA:   3'- -CGGAGCCCAGCCAGUGCAUGCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 48092 0.78 0.252719
Target:  5'- gGCCcuaUCGGGUCGGUacCGCGUG-GAGGGCc -3'
miRNA:   3'- -CGG---AGCCCAGCCA--GUGCAUgCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 32577 0.73 0.504063
Target:  5'- gGUCUCGGGccggacCGGUCGCG-ACcGGGACg -3'
miRNA:   3'- -CGGAGCCCa-----GCCAGUGCaUGcUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 69595 0.73 0.504063
Target:  5'- gGCCUCGGcUCGuUCGCGauCGGGGACa -3'
miRNA:   3'- -CGGAGCCcAGCcAGUGCauGCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 95698 0.7 0.663155
Target:  5'- gGUCUCGGaGUCGGUCAgGaUAgcgauuggguUGGGGACc -3'
miRNA:   3'- -CGGAGCC-CAGCCAGUgC-AU----------GCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 64892 0.7 0.683221
Target:  5'- gGCCaaCGGGcCGGUCGCG-AUGAacGGACc -3'
miRNA:   3'- -CGGa-GCCCaGCCAGUGCaUGCU--CCUG- -5'
2949 3' -57.1 NC_001493.1 + 13376 0.69 0.722792
Target:  5'- aCCUUGGG-CGG-UACGUA-GAGGGCc -3'
miRNA:   3'- cGGAGCCCaGCCaGUGCAUgCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 128930 0.69 0.722792
Target:  5'- aCCUUGGG-CGG-UACGUA-GAGGGCc -3'
miRNA:   3'- cGGAGCCCaGCCaGUGCAUgCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 74280 0.68 0.751703
Target:  5'- gGCUcgUUGGG-CGGUaauguguaUACGUACGGGGAUc -3'
miRNA:   3'- -CGG--AGCCCaGCCA--------GUGCAUGCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 129715 0.68 0.755493
Target:  5'- cGCCcCGGGUgacgaccucgugaccCGGcccucaacgagcUCGCGggggACGAGGACg -3'
miRNA:   3'- -CGGaGCCCA---------------GCC------------AGUGCa---UGCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 12968 0.68 0.788776
Target:  5'- gGCCggaCGGGUcCGGUCACc-ACGuGGAg -3'
miRNA:   3'- -CGGa--GCCCA-GCCAGUGcaUGCuCCUg -5'
2949 3' -57.1 NC_001493.1 + 128522 0.68 0.788776
Target:  5'- gGCCggaCGGGUcCGGUCACc-ACGuGGAg -3'
miRNA:   3'- -CGGa--GCCCA-GCCAGUGcaUGCuCCUg -5'
2949 3' -57.1 NC_001493.1 + 109839 0.68 0.788776
Target:  5'- cGCgUCGaGGaacccUCGGUCGCucACGGGGAUg -3'
miRNA:   3'- -CGgAGC-CC-----AGCCAGUGcaUGCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 111511 0.67 0.806523
Target:  5'- cGCC-CGGuGUCGGUCACu----GGGACa -3'
miRNA:   3'- -CGGaGCC-CAGCCAGUGcaugcUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 128531 0.67 0.806523
Target:  5'- cGCCaUCGGuUCGGUCGCGgACaGGGuCa -3'
miRNA:   3'- -CGG-AGCCcAGCCAGUGCaUGcUCCuG- -5'
2949 3' -57.1 NC_001493.1 + 62315 0.67 0.806523
Target:  5'- ---cCGGGUCGGUC-C--ACGGGGGCu -3'
miRNA:   3'- cggaGCCCAGCCAGuGcaUGCUCCUG- -5'
2949 3' -57.1 NC_001493.1 + 12976 0.67 0.806523
Target:  5'- cGCCaUCGGuUCGGUCGCGgACaGGGuCa -3'
miRNA:   3'- -CGG-AGCCcAGCCAGUGCaUGcUCCuG- -5'
2949 3' -57.1 NC_001493.1 + 113651 0.67 0.812593
Target:  5'- uGUCUCGGGgCGGaCugGUauccgaagucgagaACGAGGGg -3'
miRNA:   3'- -CGGAGCCCaGCCaGugCA--------------UGCUCCUg -5'
2949 3' -57.1 NC_001493.1 + 88664 0.67 0.81517
Target:  5'- aGgUUCGGGUCGuguGUCAacccacCGUACGuGGGCc -3'
miRNA:   3'- -CgGAGCCCAGC---CAGU------GCAUGCuCCUG- -5'
2949 3' -57.1 NC_001493.1 + 96174 0.67 0.83197
Target:  5'- aUCUUGacGGUCGGUgaGCGUgACGGGGAUa -3'
miRNA:   3'- cGGAGC--CCAGCCAg-UGCA-UGCUCCUG- -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.