miRNA display CGI


Results 1 - 20 of 25 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
16716 3' -41.9 NC_004166.1 + 1361 0.66 0.99996
Target:  5'- uGGGGAaaGAUGGuuGGAuGAGCuggauGCa -3'
miRNA:   3'- cCUCCU--UUACUuuUCUuCUCGuuu--CG- -5'
16716 3' -41.9 NC_004166.1 + 38879 0.66 0.999959
Target:  5'- uGAGGAAcuUGAAGAcacaaucGAAGAGCuGGAGg -3'
miRNA:   3'- cCUCCUUu-ACUUUU-------CUUCUCG-UUUCg -5'
16716 3' -41.9 NC_004166.1 + 3763 0.66 0.999915
Target:  5'- aGGGcGGGGAUGAugauuuAGAGGAGgaugauccaaaugcCGGAGCc -3'
miRNA:   3'- -CCU-CCUUUACUuu----UCUUCUC--------------GUUUCG- -5'
16716 3' -41.9 NC_004166.1 + 39359 0.66 0.999894
Target:  5'- -aAGGAAagGGAAuacGGAGGGGUAaaacguGAGCa -3'
miRNA:   3'- ccUCCUUuaCUUU---UCUUCUCGU------UUCG- -5'
16716 3' -41.9 NC_004166.1 + 36626 0.66 0.999894
Target:  5'- aGAGGAGAacauGAGGAAGAuCAGAGa -3'
miRNA:   3'- cCUCCUUUacu-UUUCUUCUcGUUUCg -5'
16716 3' -41.9 NC_004166.1 + 26582 0.66 0.999891
Target:  5'- aGGGGGuacacauucauAGGAGGGCAAGGa -3'
miRNA:   3'- -CCUCCuuuacuuu---UCUUCUCGUUUCg -5'
16716 3' -41.9 NC_004166.1 + 14929 0.67 0.999809
Target:  5'- cGGAGuaacGAGcAUGugGGGAAGAGUuacGAGCa -3'
miRNA:   3'- -CCUC----CUU-UACuuUUCUUCUCGu--UUCG- -5'
16716 3' -41.9 NC_004166.1 + 33748 0.67 0.999746
Target:  5'- gGGAGGAcggcauAGGAAG-GCAAGGg -3'
miRNA:   3'- -CCUCCUuuacuuUUCUUCuCGUUUCg -5'
16716 3' -41.9 NC_004166.1 + 12239 0.67 0.999739
Target:  5'- aGGAGGAugccacAUGGAA---GGAGCAcgcuuacAGGCg -3'
miRNA:   3'- -CCUCCUu-----UACUUUucuUCUCGU-------UUCG- -5'
16716 3' -41.9 NC_004166.1 + 35345 0.68 0.999439
Target:  5'- aGGAGGAAA---AAGGAAauGAGCGAAu- -3'
miRNA:   3'- -CCUCCUUUacuUUUCUU--CUCGUUUcg -5'
16716 3' -41.9 NC_004166.1 + 8891 0.68 0.999424
Target:  5'- aGAGGAAGaaaagaaagccucUGAGAagcgucAGAAGGGCGcacagAAGCc -3'
miRNA:   3'- cCUCCUUU-------------ACUUU------UCUUCUCGU-----UUCG- -5'
16716 3' -41.9 NC_004166.1 + 36839 0.68 0.99885
Target:  5'- -cAGGAuuuaGAcAGGaAAGGGCAGAGCg -3'
miRNA:   3'- ccUCCUuua-CUuUUC-UUCUCGUUUCG- -5'
16716 3' -41.9 NC_004166.1 + 2890 0.69 0.99853
Target:  5'- -aAGGGcaucaugGGUGAAGAGAcacAGAaaGCAGAGCu -3'
miRNA:   3'- ccUCCU-------UUACUUUUCU---UCU--CGUUUCG- -5'
16716 3' -41.9 NC_004166.1 + 33486 0.69 0.998214
Target:  5'- aGGGGuGAGcgGGAuGGAAGaAGUuuGGCg -3'
miRNA:   3'- -CCUC-CUUuaCUUuUCUUC-UCGuuUCG- -5'
16716 3' -41.9 NC_004166.1 + 3713 0.7 0.996044
Target:  5'- aGAGGAAAUGAAccaauacgcuGAAauGCAGGGCa -3'
miRNA:   3'- cCUCCUUUACUUuu--------CUUcuCGUUUCG- -5'
16716 3' -41.9 NC_004166.1 + 11759 0.7 0.99525
Target:  5'- aGAGGAcGUgGAAGAGAAGGagcuaguguuGCGGGGUa -3'
miRNA:   3'- cCUCCUuUA-CUUUUCUUCU----------CGUUUCG- -5'
16716 3' -41.9 NC_004166.1 + 1869 0.7 0.99525
Target:  5'- aGAGGAGAUugu--GAAGcguGCAAAGCg -3'
miRNA:   3'- cCUCCUUUAcuuuuCUUCu--CGUUUCG- -5'
16716 3' -41.9 NC_004166.1 + 38350 0.7 0.994332
Target:  5'- -aAGGAuggcGUGAAAAGAAGAGUuaauAAGg -3'
miRNA:   3'- ccUCCUu---UACUUUUCUUCUCGu---UUCg -5'
16716 3' -41.9 NC_004166.1 + 11827 0.71 0.990694
Target:  5'- gGGAGGAAAUGAAcccGGAG-GCcAAGa -3'
miRNA:   3'- -CCUCCUUUACUUuu-CUUCuCGuUUCg -5'
16716 3' -41.9 NC_004166.1 + 6195 0.71 0.990694
Target:  5'- cGGAGGAAuUGAAAuGGcgucagguuauGGAGUAAGuGCa -3'
miRNA:   3'- -CCUCCUUuACUUUuCU-----------UCUCGUUU-CG- -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.