miRNA display CGI


Results 1 - 18 of 18 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
23811 3' -55.5 NC_005261.1 + 29097 0.66 0.894544
Target:  5'- cGGGGacUCGgGGACCgaCGCcGAGGGGa -3'
miRNA:   3'- -UCCUaaAGCgCCUGGa-GCGuCUCCUU- -5'
23811 3' -55.5 NC_005261.1 + 43768 0.66 0.880606
Target:  5'- aAGGugcUCGUGGGgCggcgCGCGGAGGGc -3'
miRNA:   3'- -UCCuaaAGCGCCUgGa---GCGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 24163 0.66 0.880606
Target:  5'- cGGGAUcgUCGCaGGCUUC-CGGGGGGu -3'
miRNA:   3'- -UCCUAa-AGCGcCUGGAGcGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 11454 0.66 0.880606
Target:  5'- aGGGAaaaagaaGCGGAgCgggCGCGGAGGGg -3'
miRNA:   3'- -UCCUaaag---CGCCUgGa--GCGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 138189 0.66 0.873289
Target:  5'- gGGGAgggCGCGGGCgg-GCGGGGGGc -3'
miRNA:   3'- -UCCUaaaGCGCCUGgagCGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 518 0.66 0.873289
Target:  5'- gGGGAgggCGCGGGCgg-GCGGGGGGc -3'
miRNA:   3'- -UCCUaaaGCGCCUGgagCGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 34920 0.67 0.865748
Target:  5'- cGGGg--CGCGG-CCaCGCGGGGGGc -3'
miRNA:   3'- uCCUaaaGCGCCuGGaGCGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 59621 0.67 0.865748
Target:  5'- cGGAUgagCGCcaGGACCUCGCGGucGc- -3'
miRNA:   3'- uCCUAaa-GCG--CCUGGAGCGUCucCuu -5'
23811 3' -55.5 NC_005261.1 + 114281 0.67 0.850015
Target:  5'- uGGcgcgCGCGGGCUaCGUGGAGGAc -3'
miRNA:   3'- uCCuaaaGCGCCUGGaGCGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 27702 0.68 0.816143
Target:  5'- gGGGAcgcUCGcCGGAgcCCUCGCcgcgGGAGGAGc -3'
miRNA:   3'- -UCCUaa-AGC-GCCU--GGAGCG----UCUCCUU- -5'
23811 3' -55.5 NC_005261.1 + 16172 0.69 0.750531
Target:  5'- uAGGGgg-CGCGGGCgUgGCGGGGGu- -3'
miRNA:   3'- -UCCUaaaGCGCCUGgAgCGUCUCCuu -5'
23811 3' -55.5 NC_005261.1 + 104282 0.69 0.720594
Target:  5'- cGGcug-CGCGGGCCUCGCAGGc--- -3'
miRNA:   3'- uCCuaaaGCGCCUGGAGCGUCUccuu -5'
23811 3' -55.5 NC_005261.1 + 28507 0.7 0.689946
Target:  5'- -cGAgucCGCGGACCUCGgccCGGAGGGGg -3'
miRNA:   3'- ucCUaaaGCGCCUGGAGC---GUCUCCUU- -5'
23811 3' -55.5 NC_005261.1 + 95816 0.7 0.689946
Target:  5'- cGGGGgcUCGCGGuCCUCGCGGcgcuuguGGGc -3'
miRNA:   3'- -UCCUaaAGCGCCuGGAGCGUCu------CCUu -5'
23811 3' -55.5 NC_005261.1 + 43276 0.71 0.648423
Target:  5'- cGGGGcgUCGCGGccGCCUuuccCGCGGGGGGc -3'
miRNA:   3'- -UCCUaaAGCGCC--UGGA----GCGUCUCCUu -5'
23811 3' -55.5 NC_005261.1 + 58879 0.71 0.606681
Target:  5'- gGGGAggUCcggGCGGGCCUCGCAGGc--- -3'
miRNA:   3'- -UCCUaaAG---CGCCUGGAGCGUCUccuu -5'
23811 3' -55.5 NC_005261.1 + 136433 0.73 0.514596
Target:  5'- cAGGcccccUCGCGGGCgUCGCAGGGGc- -3'
miRNA:   3'- -UCCuaa--AGCGCCUGgAGCGUCUCCuu -5'
23811 3' -55.5 NC_005261.1 + 32092 0.74 0.437831
Target:  5'- gGGGAg--C-CGGACUUCGCGGAGGGc -3'
miRNA:   3'- -UCCUaaaGcGCCUGGAGCGUCUCCUu -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.