miRNA display CGI


Results 1 - 19 of 19 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
28120 3' -52.5 NC_005887.1 + 27087 0.66 0.789987
Target:  5'- --cGCGCUugCUGCGCUgguucgACAc -3'
miRNA:   3'- gcuCGCGAugGACGCGAacuugaUGU- -5'
28120 3' -52.5 NC_005887.1 + 30992 0.66 0.776477
Target:  5'- cCGAgcGCGCUgugcacaaggcgauGCC-GCGCUgGAACUACc -3'
miRNA:   3'- -GCU--CGCGA--------------UGGaCGCGAaCUUGAUGu -5'
28120 3' -52.5 NC_005887.1 + 8163 0.66 0.769086
Target:  5'- gCGAGCGCggcgAgCUGCGCgcgcgcuuucgUGAACgaccagACGu -3'
miRNA:   3'- -GCUCGCGa---UgGACGCGa----------ACUUGa-----UGU- -5'
28120 3' -52.5 NC_005887.1 + 34715 0.66 0.769086
Target:  5'- --cGCGCUugCggUGCGCggcGAugUACAu -3'
miRNA:   3'- gcuCGCGAugG--ACGCGaa-CUugAUGU- -5'
28120 3' -52.5 NC_005887.1 + 21815 0.66 0.769086
Target:  5'- cCGcGGCGCUGCCggGCGCgccGAAUgaaACGg -3'
miRNA:   3'- -GC-UCGCGAUGGa-CGCGaa-CUUGa--UGU- -5'
28120 3' -52.5 NC_005887.1 + 28488 0.66 0.758397
Target:  5'- gCGAGCacgaGC-GCCUGCGCgcgcucGGCUGCGa -3'
miRNA:   3'- -GCUCG----CGaUGGACGCGaac---UUGAUGU- -5'
28120 3' -52.5 NC_005887.1 + 32851 0.66 0.747566
Target:  5'- gCGGcGCGCgccgauCCUGCGCacGAgccgGCUGCAu -3'
miRNA:   3'- -GCU-CGCGau----GGACGCGaaCU----UGAUGU- -5'
28120 3' -52.5 NC_005887.1 + 1699 0.67 0.736606
Target:  5'- aCGAGCGCaAgCUGCGCggcaUGcAGCUcACGu -3'
miRNA:   3'- -GCUCGCGaUgGACGCGa---AC-UUGA-UGU- -5'
28120 3' -52.5 NC_005887.1 + 12081 0.67 0.736606
Target:  5'- gCGAGCgGCgUGCgUGCGCcgGAuguCUGCAa -3'
miRNA:   3'- -GCUCG-CG-AUGgACGCGaaCUu--GAUGU- -5'
28120 3' -52.5 NC_005887.1 + 3002 0.67 0.725531
Target:  5'- -cGGCGgUGCCgcgGCGCUUGcgcAGCUugGc -3'
miRNA:   3'- gcUCGCgAUGGa--CGCGAAC---UUGAugU- -5'
28120 3' -52.5 NC_005887.1 + 15883 0.67 0.714353
Target:  5'- -aAGCGCUgcACCUGCGCcucgUGGucagugACUGCc -3'
miRNA:   3'- gcUCGCGA--UGGACGCGa---ACU------UGAUGu -5'
28120 3' -52.5 NC_005887.1 + 40950 0.67 0.691744
Target:  5'- cCGAGCGCaugcucgACCgcuucgGCGCgggccUGAugUACGu -3'
miRNA:   3'- -GCUCGCGa------UGGa-----CGCGa----ACUugAUGU- -5'
28120 3' -52.5 NC_005887.1 + 3182 0.68 0.668882
Target:  5'- uCGGGCaGCUGCC-GCGCccGGACaGCGa -3'
miRNA:   3'- -GCUCG-CGAUGGaCGCGaaCUUGaUGU- -5'
28120 3' -52.5 NC_005887.1 + 40145 0.68 0.622799
Target:  5'- --cGCGCUGCgCgccGCGCUcgccgcgugUGAGCUGCGc -3'
miRNA:   3'- gcuCGCGAUG-Ga--CGCGA---------ACUUGAUGU- -5'
28120 3' -52.5 NC_005887.1 + 37443 0.69 0.599766
Target:  5'- gGAGCGCggcgcuUGCCUGCGCggu--UUGCAg -3'
miRNA:   3'- gCUCGCG------AUGGACGCGaacuuGAUGU- -5'
28120 3' -52.5 NC_005887.1 + 32229 0.69 0.599766
Target:  5'- uGAGCGCcgACCUGCagugguGUUUGGAgaACAg -3'
miRNA:   3'- gCUCGCGa-UGGACG------CGAACUUgaUGU- -5'
28120 3' -52.5 NC_005887.1 + 27165 0.69 0.576853
Target:  5'- aCGGGCGCgGgUUGUGCUUGAACc--- -3'
miRNA:   3'- -GCUCGCGaUgGACGCGAACUUGaugu -5'
28120 3' -52.5 NC_005887.1 + 24050 0.74 0.324749
Target:  5'- cCGAGCGCcGCCUcGCGCUcGAGCa--- -3'
miRNA:   3'- -GCUCGCGaUGGA-CGCGAaCUUGaugu -5'
28120 3' -52.5 NC_005887.1 + 7482 1.09 0.00115
Target:  5'- aCGAGCGCUACCUGCGCUUGAACUACAc -3'
miRNA:   3'- -GCUCGCGAUGGACGCGAACUUGAUGU- -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.