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
22599 3' -49.6 NC_005091.1 + 10094 0.66 0.967726
Target:  5'- uCGCCGuCGugcCGGguucCAGUUCGAg -3'
miRNA:   3'- -GCGGCuGCuu-GCCaaaaGUCAAGCUg -5'
22599 3' -49.6 NC_005091.1 + 53977 0.66 0.967726
Target:  5'- uGuCCGACGaAGCGGUUUccuugCuGcUCGACg -3'
miRNA:   3'- gC-GGCUGC-UUGCCAAAa----GuCaAGCUG- -5'
22599 3' -49.6 NC_005091.1 + 34195 0.66 0.967726
Target:  5'- cCGCgCGACuGAucCGGUUcgcgCGGUUCGAg -3'
miRNA:   3'- -GCG-GCUG-CUu-GCCAAaa--GUCAAGCUg -5'
22599 3' -49.6 NC_005091.1 + 28999 0.66 0.964197
Target:  5'- uGCCGACGAgaACGGg---CAGgcgcaaUCGGa -3'
miRNA:   3'- gCGGCUGCU--UGCCaaaaGUCa-----AGCUg -5'
22599 3' -49.6 NC_005091.1 + 4853 0.66 0.956348
Target:  5'- uGCCGACGuuuuGCGcGUg--CAGUgacgUGGCg -3'
miRNA:   3'- gCGGCUGCu---UGC-CAaaaGUCAa---GCUG- -5'
22599 3' -49.6 NC_005091.1 + 31794 0.67 0.952015
Target:  5'- cCGCCGACGAgcgcgacgacACGGUacuUUUCgAGgaccgUGGCa -3'
miRNA:   3'- -GCGGCUGCU----------UGCCA---AAAG-UCaa---GCUG- -5'
22599 3' -49.6 NC_005091.1 + 19999 0.67 0.952015
Target:  5'- uGCCGugG-GCGGcgaUUGGUUCGAg -3'
miRNA:   3'- gCGGCugCuUGCCaaaAGUCAAGCUg -5'
22599 3' -49.6 NC_005091.1 + 27372 0.67 0.950204
Target:  5'- gGuuGACGGAUGGcgaaccgucgCGGUUCGAg -3'
miRNA:   3'- gCggCUGCUUGCCaaaa------GUCAAGCUg -5'
22599 3' -49.6 NC_005091.1 + 24555 0.67 0.942507
Target:  5'- cCGCCgGACGuaucggucAGCGGUgucgaUCGGggCGGCg -3'
miRNA:   3'- -GCGG-CUGC--------UUGCCAaa---AGUCaaGCUG- -5'
22599 3' -49.6 NC_005091.1 + 47631 0.67 0.937323
Target:  5'- uGCCGugGAauccggcgcACGGUUcaUCGGgUCGAa -3'
miRNA:   3'- gCGGCugCU---------UGCCAAa-AGUCaAGCUg -5'
22599 3' -49.6 NC_005091.1 + 24270 0.68 0.926088
Target:  5'- uGCUGaaagaGCGAGCGGaUUUUCAGaaaGACg -3'
miRNA:   3'- gCGGC-----UGCUUGCC-AAAAGUCaagCUG- -5'
22599 3' -49.6 NC_005091.1 + 28440 0.69 0.892938
Target:  5'- uGCUGGCG-ACGGc---CAGUUCGAg -3'
miRNA:   3'- gCGGCUGCuUGCCaaaaGUCAAGCUg -5'
22599 3' -49.6 NC_005091.1 + 9207 0.69 0.877707
Target:  5'- aGCCGGCGAcccgaaucgcGCGGUguuuccggCGGUgCGGCc -3'
miRNA:   3'- gCGGCUGCU----------UGCCAaaa-----GUCAaGCUG- -5'
22599 3' -49.6 NC_005091.1 + 10373 0.71 0.799904
Target:  5'- gCGCCGAuuuccagcucuuucgUGAACgGGUUUcuuccggccuccaUCAGUUCGAUg -3'
miRNA:   3'- -GCGGCU---------------GCUUG-CCAAA-------------AGUCAAGCUG- -5'
22599 3' -49.6 NC_005091.1 + 21632 0.72 0.745242
Target:  5'- uCGaCCGGCGGGCGGccgUUC-GUUCGAa -3'
miRNA:   3'- -GC-GGCUGCUUGCCaa-AAGuCAAGCUg -5'
22599 3' -49.6 NC_005091.1 + 17944 0.72 0.723636
Target:  5'- gGCCGGCGcGACGGgugugcGUUCGGCg -3'
miRNA:   3'- gCGGCUGC-UUGCCaaaaguCAAGCUG- -5'
22599 3' -49.6 NC_005091.1 + 28269 0.75 0.576974
Target:  5'- uCGCCGACGAauaucGCGGgcgUCGGcgcugucaccgauUUCGACg -3'
miRNA:   3'- -GCGGCUGCU-----UGCCaaaAGUC-------------AAGCUG- -5'
22599 3' -49.6 NC_005091.1 + 29127 1.1 0.003886
Target:  5'- aCGCCGACGAACGGUUUUCAGUUCGACc -3'
miRNA:   3'- -GCGGCUGCUUGCCAAAAGUCAAGCUG- -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.