miRNA display CGI


Results 1 - 19 of 19 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
22250 5' -60.2 NC_005045.1 + 18258 0.66 0.362631
Target:  5'- aGGaCCUCGCagucauGGCGCUgCGGGcugGGCUg- -3'
miRNA:   3'- -CC-GGAGCG------UCGCGAgGUCCa--UCGGuc -5'
22250 5' -60.2 NC_005045.1 + 32321 0.66 0.362631
Target:  5'- cGCCUacUGUAGgGCUgCCAGaaGUAGCCAu -3'
miRNA:   3'- cCGGA--GCGUCgCGA-GGUC--CAUCGGUc -5'
22250 5' -60.2 NC_005045.1 + 10765 0.66 0.349158
Target:  5'- cGGCCaCGguGCcggaaccaucuuccaGCUCCAcacGGUAGCCc- -3'
miRNA:   3'- -CCGGaGCguCG---------------CGAGGU---CCAUCGGuc -5'
22250 5' -60.2 NC_005045.1 + 23053 0.67 0.337665
Target:  5'- aGGCCgCGCAG-GC-CCAGGccGCgCAGg -3'
miRNA:   3'- -CCGGaGCGUCgCGaGGUCCauCG-GUC- -5'
22250 5' -60.2 NC_005045.1 + 28479 0.67 0.337665
Target:  5'- gGGCa--GCGGCGC-CCAGGUuGUCGa -3'
miRNA:   3'- -CCGgagCGUCGCGaGGUCCAuCGGUc -5'
22250 5' -60.2 NC_005045.1 + 14376 0.67 0.321728
Target:  5'- cGGCCUCGUaAGUGUggaaCAGGUcGuCCGGg -3'
miRNA:   3'- -CCGGAGCG-UCGCGag--GUCCAuC-GGUC- -5'
22250 5' -60.2 NC_005045.1 + 2804 0.67 0.313973
Target:  5'- aGCCUUGgcggcCAGCGCuUCCAGGUcacCCAGc -3'
miRNA:   3'- cCGGAGC-----GUCGCG-AGGUCCAuc-GGUC- -5'
22250 5' -60.2 NC_005045.1 + 31721 0.67 0.30636
Target:  5'- cGCaUCGUAGCGgaCCAGGaacuGCCGGc -3'
miRNA:   3'- cCGgAGCGUCGCgaGGUCCau--CGGUC- -5'
22250 5' -60.2 NC_005045.1 + 22409 0.67 0.298889
Target:  5'- uGGCCgcgacCGUAGUGCUcgCCAGG-GGCgAGg -3'
miRNA:   3'- -CCGGa----GCGUCGCGA--GGUCCaUCGgUC- -5'
22250 5' -60.2 NC_005045.1 + 10430 0.68 0.27524
Target:  5'- uGCCggCGgGGCGacaccccguacuucUUCCAGGUAGCCGc -3'
miRNA:   3'- cCGGa-GCgUCGC--------------GAGGUCCAUCGGUc -5'
22250 5' -60.2 NC_005045.1 + 39390 0.69 0.249889
Target:  5'- aGGUCUucuucguUGUAGCGCUgCGGGUcAGCCGc -3'
miRNA:   3'- -CCGGA-------GCGUCGCGAgGUCCA-UCGGUc -5'
22250 5' -60.2 NC_005045.1 + 7099 0.69 0.249889
Target:  5'- cGCCUCGCgguggguGGUGCUCCAGcccaAGUCGGc -3'
miRNA:   3'- cCGGAGCG-------UCGCGAGGUCca--UCGGUC- -5'
22250 5' -60.2 NC_005045.1 + 33442 0.69 0.225906
Target:  5'- cGGCCcaggaggCGCcguGCGCccucUCCGGGcugGGCCAGg -3'
miRNA:   3'- -CCGGa------GCGu--CGCG----AGGUCCa--UCGGUC- -5'
22250 5' -60.2 NC_005045.1 + 28489 0.71 0.159699
Target:  5'- uGGCCUCGCAGguggaggccaaGCgCCAGGggaugcUAGCCGGc -3'
miRNA:   3'- -CCGGAGCGUCg----------CGaGGUCC------AUCGGUC- -5'
22250 5' -60.2 NC_005045.1 + 18694 0.72 0.155406
Target:  5'- uGGCCUC-CGGCgacgGCUCCAGGUGGaCGc -3'
miRNA:   3'- -CCGGAGcGUCG----CGAGGUCCAUCgGUc -5'
22250 5' -60.2 NC_005045.1 + 38900 0.73 0.114672
Target:  5'- gGGCCUCGgGGCGC---AGGUAcGCCAGc -3'
miRNA:   3'- -CCGGAGCgUCGCGaggUCCAU-CGGUC- -5'
22250 5' -60.2 NC_005045.1 + 2281 0.74 0.099655
Target:  5'- aGGUaa-GCAGCgGCggCCAGGUAGCCGGc -3'
miRNA:   3'- -CCGgagCGUCG-CGa-GGUCCAUCGGUC- -5'
22250 5' -60.2 NC_005045.1 + 5629 0.76 0.079429
Target:  5'- uGGCCaCGCGGCGCaucUCCGGGgucaccugggAGCCGGu -3'
miRNA:   3'- -CCGGaGCGUCGCG---AGGUCCa---------UCGGUC- -5'
22250 5' -60.2 NC_005045.1 + 11875 1.09 0.00021
Target:  5'- gGGCCUCGCAGCGCUCCAGGUAGCCAGc -3'
miRNA:   3'- -CCGGAGCGUCGCGAGGUCCAUCGGUC- -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.