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 + 15474 0.66 0.819459
Target:  5'- gAGCUUCUUcUGGCCGUagGCgAUGUagCGCa -3'
miRNA:   3'- -UUGGAGGAaACCGGCG--UGgUAUA--GCG- -5'
23940 3' -53.6 NC_005262.1 + 25734 0.66 0.819459
Target:  5'- aGAUCgcgCCagcGGCCGUGCCGUucGUCGUg -3'
miRNA:   3'- -UUGGa--GGaaaCCGGCGUGGUA--UAGCG- -5'
23940 3' -53.6 NC_005262.1 + 48298 0.66 0.819459
Target:  5'- cAACCUCgaggccGGCCuGCGCUAcAUCGCc -3'
miRNA:   3'- -UUGGAGgaaa--CCGG-CGUGGUaUAGCG- -5'
23940 3' -53.6 NC_005262.1 + 41957 0.66 0.800307
Target:  5'- -cCCgcgCCUUguGCCGCGCC-UGUUGCc -3'
miRNA:   3'- uuGGa--GGAAacCGGCGUGGuAUAGCG- -5'
23940 3' -53.6 NC_005262.1 + 6413 0.66 0.790454
Target:  5'- cGAUCUCCagcgagUUGaGCUGCGCCAUcUUGUc -3'
miRNA:   3'- -UUGGAGGa-----AAC-CGGCGUGGUAuAGCG- -5'
23940 3' -53.6 NC_005262.1 + 57175 0.66 0.780432
Target:  5'- cGACC-CCUc--GCCGC-UCGUGUCGCu -3'
miRNA:   3'- -UUGGaGGAaacCGGCGuGGUAUAGCG- -5'
23940 3' -53.6 NC_005262.1 + 34019 0.67 0.77025
Target:  5'- uGACg-CCg--GGCCGCAUCGUG-CGCc -3'
miRNA:   3'- -UUGgaGGaaaCCGGCGUGGUAUaGCG- -5'
23940 3' -53.6 NC_005262.1 + 49808 0.67 0.77025
Target:  5'- cACCgUCCggcccgaucGGCCGCGCgAUGgagCGCg -3'
miRNA:   3'- uUGG-AGGaaa------CCGGCGUGgUAUa--GCG- -5'
23940 3' -53.6 NC_005262.1 + 39049 0.67 0.749461
Target:  5'- gAAUC-CaCUUcGGCCGCACgCcgAUCGCg -3'
miRNA:   3'- -UUGGaG-GAAaCCGGCGUG-GuaUAGCG- -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 + 37414 0.67 0.738876
Target:  5'- gAACCUgCUUgGGuuGCAgCucUAUCGCg -3'
miRNA:   3'- -UUGGAgGAAaCCggCGUgGu-AUAGCG- -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 + 58985 0.67 0.72818
Target:  5'- cGGCCUCaCgccucCCGCGCCGUcgCGCu -3'
miRNA:   3'- -UUGGAG-GaaaccGGCGUGGUAuaGCG- -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 + 6755 0.68 0.71413
Target:  5'- cAGCCUCCUUgccGGCCaGCuCCuugaagcgguugaagAUCGCg -3'
miRNA:   3'- -UUGGAGGAAa--CCGG-CGuGGua-------------UAGCG- -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 + 28420 0.69 0.66346
Target:  5'- cGugCUCgaggucgaaucgGGCCGCGCCGUGcUCGCc -3'
miRNA:   3'- -UugGAGgaaa--------CCGGCGUGGUAU-AGCG- -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 + 4333 0.69 0.651208
Target:  5'- gAGCCUCgCg--GGCCGU-CCAUcggccGUCGCg -3'
miRNA:   3'- -UUGGAG-GaaaCCGGCGuGGUA-----UAGCG- -5'
23940 3' -53.6 NC_005262.1 + 56646 0.69 0.628885
Target:  5'- cGGCCggguguuucgCCUguUUGGCguCGCACCAUAcCGCa -3'
miRNA:   3'- -UUGGa---------GGA--AACCG--GCGUGGUAUaGCG- -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.