miRNA display CGI


Results 1 - 20 of 26 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
23084 5' -55.3 NC_005178.1 + 2150 0.66 0.613469
Target:  5'- gCCAGCGCCgGGGCCaguUGGcccucGCUGg--- -3'
miRNA:   3'- -GGUCGCGGaCUUGG---ACCu----CGACaugu -5'
23084 5' -55.3 NC_005178.1 + 25357 0.66 0.613469
Target:  5'- gCCAGCcaGgCUG-GCCgGGAGCUGUcCGg -3'
miRNA:   3'- -GGUCG--CgGACuUGGaCCUCGACAuGU- -5'
23084 5' -55.3 NC_005178.1 + 20392 0.66 0.595315
Target:  5'- gCCGGC-CCUGGacgcccaggcgaccaACCUGGccaAGCUGcGCGa -3'
miRNA:   3'- -GGUCGcGGACU---------------UGGACC---UCGACaUGU- -5'
23084 5' -55.3 NC_005178.1 + 19017 0.66 0.590788
Target:  5'- gCCAGgGCgUUGGugACCUGGAGaaucggGUGCGc -3'
miRNA:   3'- -GGUCgCG-GACU--UGGACCUCga----CAUGU- -5'
23084 5' -55.3 NC_005178.1 + 6694 0.66 0.579499
Target:  5'- -gAGCGCCUGGACCgGGcggccucacuGCUGaGCc -3'
miRNA:   3'- ggUCGCGGACUUGGaCCu---------CGACaUGu -5'
23084 5' -55.3 NC_005178.1 + 14447 0.66 0.579499
Target:  5'- -gGGCGCCggGGugCcGGAGCUGg--- -3'
miRNA:   3'- ggUCGCGGa-CUugGaCCUCGACaugu -5'
23084 5' -55.3 NC_005178.1 + 16381 0.67 0.534894
Target:  5'- gCGGCGCCUacgcCCUGGGGCagGUcCAu -3'
miRNA:   3'- gGUCGCGGAcuu-GGACCUCGa-CAuGU- -5'
23084 5' -55.3 NC_005178.1 + 31747 0.68 0.440815
Target:  5'- cCCAGCGCCUGGcccgagguaauGCCggcgacgaccuacagGGGGCggccaGUGCu -3'
miRNA:   3'- -GGUCGCGGACU-----------UGGa--------------CCUCGa----CAUGu -5'
23084 5' -55.3 NC_005178.1 + 12081 0.69 0.429836
Target:  5'- aCCAGCGCCUGG---UGGAGUgGUcGCGu -3'
miRNA:   3'- -GGUCGCGGACUuggACCUCGaCA-UGU- -5'
23084 5' -55.3 NC_005178.1 + 7891 0.69 0.419995
Target:  5'- gCGGCGCCgaugcGGuCCUGGAGCUacUGCGc -3'
miRNA:   3'- gGUCGCGGa----CUuGGACCUCGAc-AUGU- -5'
23084 5' -55.3 NC_005178.1 + 7314 0.69 0.39506
Target:  5'- uCCAGCGCaUGGggguccgccuucaucGCCUGGAGCcg-ACAg -3'
miRNA:   3'- -GGUCGCGgACU---------------UGGACCUCGacaUGU- -5'
23084 5' -55.3 NC_005178.1 + 36193 0.69 0.39131
Target:  5'- gCCAGUGgCUGGAC--GGAGCUGguagGCGg -3'
miRNA:   3'- -GGUCGCgGACUUGgaCCUCGACa---UGU- -5'
23084 5' -55.3 NC_005178.1 + 30526 0.69 0.382036
Target:  5'- -aGGUGCC-GGACUUcGGGCUGUGCAa -3'
miRNA:   3'- ggUCGCGGaCUUGGAcCUCGACAUGU- -5'
23084 5' -55.3 NC_005178.1 + 10054 0.7 0.37291
Target:  5'- gCCAGCGCCcaucgccCCUGGAGCU--ACGc -3'
miRNA:   3'- -GGUCGCGGacuu---GGACCUCGAcaUGU- -5'
23084 5' -55.3 NC_005178.1 + 2186 0.7 0.363933
Target:  5'- gUCAGCaGCC-GGGCCUGGAGCgucACGc -3'
miRNA:   3'- -GGUCG-CGGaCUUGGACCUCGacaUGU- -5'
23084 5' -55.3 NC_005178.1 + 15668 0.7 0.355107
Target:  5'- uCCAGCGCC-GGGCCgaccaGGAGCacGUugGg -3'
miRNA:   3'- -GGUCGCGGaCUUGGa----CCUCGa-CAugU- -5'
23084 5' -55.3 NC_005178.1 + 37223 0.7 0.345574
Target:  5'- aCAGCGCCgGAccugacaGCCUGGgucgaAGCUGU-CAa -3'
miRNA:   3'- gGUCGCGGaCU-------UGGACC-----UCGACAuGU- -5'
23084 5' -55.3 NC_005178.1 + 19541 0.73 0.234654
Target:  5'- aCCA-CGCC--AGCCUGGAGCUGgGCAc -3'
miRNA:   3'- -GGUcGCGGacUUGGACCUCGACaUGU- -5'
23084 5' -55.3 NC_005178.1 + 10248 0.73 0.222277
Target:  5'- gCCGGCGCgCUGcugcGCCUGGAGCUucUGCu -3'
miRNA:   3'- -GGUCGCG-GACu---UGGACCUCGAc-AUGu -5'
23084 5' -55.3 NC_005178.1 + 18098 0.74 0.188445
Target:  5'- gCAGCGCCUGGcccagcccGCCaUGGuGCUGUGgGa -3'
miRNA:   3'- gGUCGCGGACU--------UGG-ACCuCGACAUgU- -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.