miRNA display CGI


Results 1 - 18 of 18 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
31743 3' -62.5 NC_006938.1 + 52874 0.66 0.405928
Target:  5'- gCGCUCGGuGGcgAGGauuGCCCcucGACCACc -3'
miRNA:   3'- aGCGAGCC-CC--UCCac-CGGGu--CUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 3489 0.66 0.405928
Target:  5'- -gGCggaaCGGuGAGGUuguuGGCCCcGGCCACg -3'
miRNA:   3'- agCGa---GCCcCUCCA----CCGGGuCUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 8009 0.66 0.397222
Target:  5'- cCGCcCGucauGGGAGGUGGCUUcuucacggAGGCCAa -3'
miRNA:   3'- aGCGaGC----CCCUCCACCGGG--------UCUGGUg -5'
31743 3' -62.5 NC_006938.1 + 5734 0.66 0.397222
Target:  5'- -gGCUucUGGGGAaa--GCCCAGGCCACc -3'
miRNA:   3'- agCGA--GCCCCUccacCGGGUCUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 28719 0.66 0.388637
Target:  5'- cUC-CUCGGGGu--UGGCCCcGAuCCACg -3'
miRNA:   3'- -AGcGAGCCCCuccACCGGGuCU-GGUG- -5'
31743 3' -62.5 NC_006938.1 + 42255 0.66 0.387785
Target:  5'- -aGC-CGGGGA-GUGGCCCuucagcuucuugaGGAuCCGCu -3'
miRNA:   3'- agCGaGCCCCUcCACCGGG-------------UCU-GGUG- -5'
31743 3' -62.5 NC_006938.1 + 40829 0.66 0.380175
Target:  5'- gCGC-CGGGaGucGGgaccGGCCgGGACCACc -3'
miRNA:   3'- aGCGaGCCC-Cu-CCa---CCGGgUCUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 19562 0.66 0.363624
Target:  5'- cUCGCggaCGGGGAGaUGGUggAGAUCACc -3'
miRNA:   3'- -AGCGa--GCCCCUCcACCGggUCUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 1480 0.67 0.339749
Target:  5'- cCGa--GGGcGAGGUGGCCCGGuacauucUCACa -3'
miRNA:   3'- aGCgagCCC-CUCCACCGGGUCu------GGUG- -5'
31743 3' -62.5 NC_006938.1 + 29792 0.68 0.268534
Target:  5'- -gGCUCGGccGAGGggccaGCCCGGACCAg -3'
miRNA:   3'- agCGAGCCc-CUCCac---CGGGUCUGGUg -5'
31743 3' -62.5 NC_006938.1 + 41888 0.69 0.261481
Target:  5'- -aGC-CGGGGcAGGUuGCCCgacagcuGGACCGCg -3'
miRNA:   3'- agCGaGCCCC-UCCAcCGGG-------UCUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 41479 0.7 0.215193
Target:  5'- aCGUcgUCGGGGAcuuuGCCCAGGCCGCc -3'
miRNA:   3'- aGCG--AGCCCCUccacCGGGUCUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 56490 0.7 0.204645
Target:  5'- -aGUUCGGGGAGGgaggugGaGCCgGGGCgACg -3'
miRNA:   3'- agCGAGCCCCUCCa-----C-CGGgUCUGgUG- -5'
31743 3' -62.5 NC_006938.1 + 20832 0.72 0.142347
Target:  5'- cCGCgCGGGcaagacacagcgcGAGGUGGCCCgAGACCuCg -3'
miRNA:   3'- aGCGaGCCC-------------CUCCACCGGG-UCUGGuG- -5'
31743 3' -62.5 NC_006938.1 + 47628 0.73 0.135416
Target:  5'- aCGCUCGGcaccGGAGGUGGUgCAGcguACCAg -3'
miRNA:   3'- aGCGAGCC----CCUCCACCGgGUC---UGGUg -5'
31743 3' -62.5 NC_006938.1 + 56660 0.74 0.115523
Target:  5'- -gGCU-GGGGAGGcaaGGCCgGGGCCGCu -3'
miRNA:   3'- agCGAgCCCCUCCa--CCGGgUCUGGUG- -5'
31743 3' -62.5 NC_006938.1 + 49887 0.77 0.065466
Target:  5'- gCGCUgGGGGAGGUuGCCaCAGuGCCGCg -3'
miRNA:   3'- aGCGAgCCCCUCCAcCGG-GUC-UGGUG- -5'
31743 3' -62.5 NC_006938.1 + 37789 1.08 0.000294
Target:  5'- cUCGCUCGGGGAGGUGGCCCAGACCACc -3'
miRNA:   3'- -AGCGAGCCCCUCCACCGGGUCUGGUG- -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.