miRNA display CGI


Results 1 - 20 of 21 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
7118 3' -53 NC_001895.1 + 20845 0.66 0.712894
Target:  5'- gGC-GGCGGUUUuguUCAUCGUCAuggagagaacaUCCCCg -3'
miRNA:   3'- -UGuCCGUUAAAu--GGUGGCGGU-----------AGGGG- -5'
7118 3' -53 NC_001895.1 + 18221 0.66 0.701516
Target:  5'- uACGGuCAccagUACCACCGCCA-CCgCg -3'
miRNA:   3'- -UGUCcGUuaa-AUGGUGGCGGUaGGgG- -5'
7118 3' -53 NC_001895.1 + 19785 0.66 0.690062
Target:  5'- gGCGGcCAGUgaaaUAUCACUGCCAcaUCCgCCa -3'
miRNA:   3'- -UGUCcGUUAa---AUGGUGGCGGU--AGG-GG- -5'
7118 3' -53 NC_001895.1 + 19021 0.66 0.690062
Target:  5'- -gAGGUcuaccGGUgcGCUGCCGuUCAUCCCCg -3'
miRNA:   3'- ugUCCG-----UUAaaUGGUGGC-GGUAGGGG- -5'
7118 3' -53 NC_001895.1 + 4735 0.66 0.690062
Target:  5'- gGCuGGCAua--AUCACCGCCcuuaCCCa -3'
miRNA:   3'- -UGuCCGUuaaaUGGUGGCGGuag-GGG- -5'
7118 3' -53 NC_001895.1 + 6519 0.66 0.677392
Target:  5'- uGCAGcGCGGcUUgcccuggaugcgcGCCACCGCCcagcgcauAUCCCg -3'
miRNA:   3'- -UGUC-CGUUaAA-------------UGGUGGCGG--------UAGGGg -5'
7118 3' -53 NC_001895.1 + 11507 0.66 0.666981
Target:  5'- cACGGGCGGUgaugcugGCCugUGCCG-CCg- -3'
miRNA:   3'- -UGUCCGUUAaa-----UGGugGCGGUaGGgg -5'
7118 3' -53 NC_001895.1 + 11563 0.66 0.666981
Target:  5'- cACAGGCcagc-AUCACCGCCcgugcggCCUCa -3'
miRNA:   3'- -UGUCCGuuaaaUGGUGGCGGua-----GGGG- -5'
7118 3' -53 NC_001895.1 + 11933 0.66 0.655379
Target:  5'- cACGGucacGCGGUcgGCCACCGgCCugacGUCCUCg -3'
miRNA:   3'- -UGUC----CGUUAaaUGGUGGC-GG----UAGGGG- -5'
7118 3' -53 NC_001895.1 + 10609 0.67 0.632115
Target:  5'- --cGGCGAggggUUAUCGCCGgaauaaAUCCCCg -3'
miRNA:   3'- uguCCGUUa---AAUGGUGGCgg----UAGGGG- -5'
7118 3' -53 NC_001895.1 + 6620 0.67 0.596089
Target:  5'- -gGGGCGGUgcUGCCacacggcACCGCCGUCgaacugCCCg -3'
miRNA:   3'- ugUCCGUUAa-AUGG-------UGGCGGUAG------GGG- -5'
7118 3' -53 NC_001895.1 + 7685 0.68 0.585677
Target:  5'- uACGGGCGGga-GCUGCCGCCGgaaUCgCUg -3'
miRNA:   3'- -UGUCCGUUaaaUGGUGGCGGU---AGgGG- -5'
7118 3' -53 NC_001895.1 + 21009 0.68 0.562676
Target:  5'- uGCAGGCGGcUUAaCACgGCacggcuuccCGUCCCCg -3'
miRNA:   3'- -UGUCCGUUaAAUgGUGgCG---------GUAGGGG- -5'
7118 3' -53 NC_001895.1 + 23408 0.68 0.551264
Target:  5'- uGCGGGauuuuUUUACCGCUGgCCGUCacuCCCu -3'
miRNA:   3'- -UGUCCguu--AAAUGGUGGC-GGUAG---GGG- -5'
7118 3' -53 NC_001895.1 + 28619 0.69 0.506416
Target:  5'- gGCAGGCAuauucUGCCAUUGCCcgUCUg -3'
miRNA:   3'- -UGUCCGUuaa--AUGGUGGCGGuaGGGg -5'
7118 3' -53 NC_001895.1 + 10951 0.69 0.495442
Target:  5'- --cGGUug--UGCCGCCGCUGUCgCCg -3'
miRNA:   3'- uguCCGuuaaAUGGUGGCGGUAGgGG- -5'
7118 3' -53 NC_001895.1 + 20478 0.71 0.402234
Target:  5'- cACcGGCcaucgUUcCCGCCGCCGcaaUCCCCa -3'
miRNA:   3'- -UGuCCGuua--AAuGGUGGCGGU---AGGGG- -5'
7118 3' -53 NC_001895.1 + 27912 0.71 0.373722
Target:  5'- uCGGGUAAUaaccaACCACCGCCAgccaUUCCUg -3'
miRNA:   3'- uGUCCGUUAaa---UGGUGGCGGU----AGGGG- -5'
7118 3' -53 NC_001895.1 + 5494 0.73 0.296718
Target:  5'- cCGGGUAAa----CACCGCCGUaCCCCg -3'
miRNA:   3'- uGUCCGUUaaaugGUGGCGGUA-GGGG- -5'
7118 3' -53 NC_001895.1 + 208 0.78 0.143262
Target:  5'- uGCGGGCGGcuuuUUUACaCcCCGUCAUCCCCc -3'
miRNA:   3'- -UGUCCGUU----AAAUG-GuGGCGGUAGGGG- -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.