miRNA display CGI


Results 1 - 20 of 28 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
23940 3' -53.6 NC_005262.1 + 21906 1.1 0.00121
Target:  5'- cAACCUCCUUUGGCCGCACCAUAUCGCa -3'
miRNA:   3'- -UUGGAGGAAACCGGCGUGGUAUAGCG- -5'
23940 3' -53.6 NC_005262.1 + 55534 0.73 0.41736
Target:  5'- cAGCUUCCUc-GGCCGCugCuu-UCGCg -3'
miRNA:   3'- -UUGGAGGAaaCCGGCGugGuauAGCG- -5'
23940 3' -53.6 NC_005262.1 + 16880 0.72 0.436729
Target:  5'- cGGCCgcgcgCCg--GGCCGCACCAcacCGCa -3'
miRNA:   3'- -UUGGa----GGaaaCCGGCGUGGUauaGCG- -5'
23940 3' -53.6 NC_005262.1 + 41855 0.72 0.466723
Target:  5'- uGACCgCCUUgcgugugGuGCCGCACCGUAUaaUGCg -3'
miRNA:   3'- -UUGGaGGAAa------C-CGGCGUGGUAUA--GCG- -5'
23940 3' -53.6 NC_005262.1 + 46701 0.71 0.52966
Target:  5'- gGACCUCCUcgcGGCC-CGCCGcGUCGa -3'
miRNA:   3'- -UUGGAGGAaa-CCGGcGUGGUaUAGCg -5'
23940 3' -53.6 NC_005262.1 + 8811 0.71 0.540467
Target:  5'- cGCCuUCCUgaauGCCGCGCCAgauggCGCg -3'
miRNA:   3'- uUGG-AGGAaac-CGGCGUGGUaua--GCG- -5'
23940 3' -53.6 NC_005262.1 + 2506 0.7 0.595446
Target:  5'- cGACC-CCgcgaggcUGGCCGCGCCG-AUCGa -3'
miRNA:   3'- -UUGGaGGaa-----ACCGGCGUGGUaUAGCg -5'
23940 3' -53.6 NC_005262.1 + 42987 0.7 0.595446
Target:  5'- aAACCgcgCCg--GGCCGCuuCGUGUCGg -3'
miRNA:   3'- -UUGGa--GGaaaCCGGCGugGUAUAGCg -5'
23940 3' -53.6 NC_005262.1 + 56646 0.69 0.628885
Target:  5'- cGGCCggguguuucgCCUguUUGGCguCGCACCAUAcCGCa -3'
miRNA:   3'- -UUGGa---------GGA--AACCG--GCGUGGUAUaGCG- -5'
23940 3' -53.6 NC_005262.1 + 4333 0.69 0.651208
Target:  5'- gAGCCUCgCg--GGCCGU-CCAUcggccGUCGCg -3'
miRNA:   3'- -UUGGAG-GaaaCCGGCGuGGUA-----UAGCG- -5'
23940 3' -53.6 NC_005262.1 + 5367 0.69 0.662348
Target:  5'- gGGCgUCCUUgacgGGCagggaCGCgGCCGUGUCGUg -3'
miRNA:   3'- -UUGgAGGAAa---CCG-----GCG-UGGUAUAGCG- -5'
23940 3' -53.6 NC_005262.1 + 28420 0.69 0.66346
Target:  5'- cGugCUCgaggucgaaucgGGCCGCGCCGUGcUCGCc -3'
miRNA:   3'- -UugGAGgaaa--------CCGGCGUGGUAU-AGCG- -5'
23940 3' -53.6 NC_005262.1 + 42146 0.68 0.684529
Target:  5'- -gUgUCCUUcaucaccaucUGGCCGuCGCCGUcgccGUCGCa -3'
miRNA:   3'- uuGgAGGAA----------ACCGGC-GUGGUA----UAGCG- -5'
23940 3' -53.6 NC_005262.1 + 6755 0.68 0.71413
Target:  5'- cAGCCUCCUUgccGGCCaGCuCCuugaagcgguugaagAUCGCg -3'
miRNA:   3'- -UUGGAGGAAa--CCGG-CGuGGua-------------UAGCG- -5'
23940 3' -53.6 NC_005262.1 + 16718 0.68 0.717386
Target:  5'- cGACCUCCUUggacacGGgCGUcacGCCGUcGUCGUa -3'
miRNA:   3'- -UUGGAGGAAa-----CCgGCG---UGGUA-UAGCG- -5'
23940 3' -53.6 NC_005262.1 + 58985 0.67 0.72818
Target:  5'- cGGCCUCaCgccucCCGCGCCGUcgCGCu -3'
miRNA:   3'- -UUGGAG-GaaaccGGCGUGGUAuaGCG- -5'
23940 3' -53.6 NC_005262.1 + 31443 0.67 0.72818
Target:  5'- aGGCCg---UUGGCCGUGCCGUAg-GCg -3'
miRNA:   3'- -UUGGaggaAACCGGCGUGGUAUagCG- -5'
23940 3' -53.6 NC_005262.1 + 37414 0.67 0.738876
Target:  5'- gAACCUgCUUgGGuuGCAgCucUAUCGCg -3'
miRNA:   3'- -UUGGAgGAAaCCggCGUgGu-AUAGCG- -5'
23940 3' -53.6 NC_005262.1 + 52031 0.67 0.743124
Target:  5'- cGCCcaggUCg--GGCCGCGCCAguuguucgaggaagAUCGCg -3'
miRNA:   3'- uUGGa---GGaaaCCGGCGUGGUa-------------UAGCG- -5'
23940 3' -53.6 NC_005262.1 + 39049 0.67 0.749461
Target:  5'- gAAUC-CaCUUcGGCCGCACgCcgAUCGCg -3'
miRNA:   3'- -UUGGaG-GAAaCCGGCGUG-GuaUAGCG- -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.