miRNA display CGI


Results 1 - 17 of 17 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
27603 5' -57.6 NC_005882.1 + 24813 0.66 0.4152
Target:  5'- aGGGAcGGGauaCCGCCGGAaauGCGGGCg-- -3'
miRNA:   3'- -UUUUuUCCg--GGCGGCUU---CGCCCGguu -5'
27603 5' -57.6 NC_005882.1 + 24377 0.66 0.40548
Target:  5'- ----uAGGUCgCGCCGAAcGCGGaGCUGAa -3'
miRNA:   3'- uuuuuUCCGG-GCGGCUU-CGCC-CGGUU- -5'
27603 5' -57.6 NC_005882.1 + 15460 0.66 0.377199
Target:  5'- --cGAAGGCgCCGCCcguGAAGCgcgGGaGCCGAu -3'
miRNA:   3'- uuuUUUCCG-GGCGG---CUUCG---CC-CGGUU- -5'
27603 5' -57.6 NC_005882.1 + 9939 0.67 0.350276
Target:  5'- ----cGGGCCguauuggcucgCGCCGGugccaAGCGGGUCAAa -3'
miRNA:   3'- uuuuuUCCGG-----------GCGGCU-----UCGCCCGGUU- -5'
27603 5' -57.6 NC_005882.1 + 22650 0.67 0.341611
Target:  5'- -----cGGCCCGaUCGguGCGGuGCCGAu -3'
miRNA:   3'- uuuuuuCCGGGC-GGCuuCGCC-CGGUU- -5'
27603 5' -57.6 NC_005882.1 + 15261 0.67 0.333101
Target:  5'- ----cGGGagCGCCGugagcAGCGGGCCGAg -3'
miRNA:   3'- uuuuuUCCggGCGGCu----UCGCCCGGUU- -5'
27603 5' -57.6 NC_005882.1 + 3943 0.68 0.308513
Target:  5'- ---cAGGGCCUuguggagcuGCgCGAAGCGGGCUu- -3'
miRNA:   3'- uuuuUUCCGGG---------CG-GCUUCGCCCGGuu -5'
27603 5' -57.6 NC_005882.1 + 27137 0.68 0.285334
Target:  5'- ----uGGGCgagcaGCCGcAGCGGGCCGAu -3'
miRNA:   3'- uuuuuUCCGgg---CGGCuUCGCCCGGUU- -5'
27603 5' -57.6 NC_005882.1 + 33094 0.69 0.270659
Target:  5'- ---cAAGGCuuGCCGAacuGGUcGGCCAAg -3'
miRNA:   3'- uuuuUUCCGggCGGCU---UCGcCCGGUU- -5'
27603 5' -57.6 NC_005882.1 + 23226 0.69 0.256597
Target:  5'- ---cAGGcGCUgGCCGGGcGCGGGCCGg -3'
miRNA:   3'- uuuuUUC-CGGgCGGCUU-CGCCCGGUu -5'
27603 5' -57.6 NC_005882.1 + 25731 0.7 0.208566
Target:  5'- -----cGGCCUGCCGAacagcgccgauuacgGGCGcGGCCGu -3'
miRNA:   3'- uuuuuuCCGGGCGGCU---------------UCGC-CCGGUu -5'
27603 5' -57.6 NC_005882.1 + 4763 0.71 0.189709
Target:  5'- -----cGGCCCGC--GAGCGGGUCAAc -3'
miRNA:   3'- uuuuuuCCGGGCGgcUUCGCCCGGUU- -5'
27603 5' -57.6 NC_005882.1 + 6409 0.72 0.160074
Target:  5'- -----cGGCCUGCCGcGAGCuGGGCCu- -3'
miRNA:   3'- uuuuuuCCGGGCGGC-UUCG-CCCGGuu -5'
27603 5' -57.6 NC_005882.1 + 23413 0.72 0.146877
Target:  5'- --cGAAGGCCCGCCGcacgcgaugaGAGCGGcuCCAGg -3'
miRNA:   3'- uuuUUUCCGGGCGGC----------UUCGCCc-GGUU- -5'
27603 5' -57.6 NC_005882.1 + 11954 0.74 0.109763
Target:  5'- ---cAAGuGCCCGCCGAGGCGcuGGCUAc -3'
miRNA:   3'- uuuuUUC-CGGGCGGCUUCGC--CCGGUu -5'
27603 5' -57.6 NC_005882.1 + 24485 0.75 0.103479
Target:  5'- -----uGGCCCGCUucGGCGGGCCu- -3'
miRNA:   3'- uuuuuuCCGGGCGGcuUCGCCCGGuu -5'
27603 5' -57.6 NC_005882.1 + 24546 1.03 0.000595
Target:  5'- uAAAAAAGGCCCGCCGAAGCGGGCCAAg -3'
miRNA:   3'- -UUUUUUCCGGGCGGCUUCGCCCGGUU- -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.