miRNA display CGI


Results 1 - 20 of 26 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
28097 3' -49.5 NC_005887.1 + 1122 0.7 0.767351
Target:  5'- gCGUGUgcuUGUCGAGCUCGGucACGGGcaCGAc -3'
miRNA:   3'- -GUACA---GCAGCUCGAGCU--UGCUUa-GCU- -5'
28097 3' -49.5 NC_005887.1 + 1305 0.66 0.934884
Target:  5'- cCAUGUUcUCGAGCUCGAccugcaccgcGCGGcgCc- -3'
miRNA:   3'- -GUACAGcAGCUCGAGCU----------UGCUuaGcu -5'
28097 3' -49.5 NC_005887.1 + 1626 0.7 0.744675
Target:  5'- -cUGUCauUCGAGCUCGAggacggcACGAgcGUCGAa -3'
miRNA:   3'- guACAGc-AGCUCGAGCU-------UGCU--UAGCU- -5'
28097 3' -49.5 NC_005887.1 + 2048 1.1 0.003007
Target:  5'- gCAUGUCGUCGAGCUCGAACGAAUCGAg -3'
miRNA:   3'- -GUACAGCAGCUCGAGCUUGCUUAGCU- -5'
28097 3' -49.5 NC_005887.1 + 11062 0.73 0.620806
Target:  5'- gAUGcCgGUCGAGCUCG-ACGAggCGAu -3'
miRNA:   3'- gUACaG-CAGCUCGAGCuUGCUuaGCU- -5'
28097 3' -49.5 NC_005887.1 + 11836 0.67 0.910125
Target:  5'- -cUGUUcUCGAGCagcaCGGGCGGAUCGu -3'
miRNA:   3'- guACAGcAGCUCGa---GCUUGCUUAGCu -5'
28097 3' -49.5 NC_005887.1 + 16212 0.71 0.723679
Target:  5'- --cGUCGUCGAGCgccgCGaAACGAAgcgCGc -3'
miRNA:   3'- guaCAGCAGCUCGa---GC-UUGCUUa--GCu -5'
28097 3' -49.5 NC_005887.1 + 16973 0.69 0.818404
Target:  5'- aAUGUCGgCGAGCUCGAcuACGGc---- -3'
miRNA:   3'- gUACAGCaGCUCGAGCU--UGCUuagcu -5'
28097 3' -49.5 NC_005887.1 + 21082 0.68 0.855453
Target:  5'- gGUGgCGUUG-GCUUGAACGGuAUCGGc -3'
miRNA:   3'- gUACaGCAGCuCGAGCUUGCU-UAGCU- -5'
28097 3' -49.5 NC_005887.1 + 21456 0.68 0.864096
Target:  5'- --aG-CGUCGAGCaCGGucaGCGggUCGGg -3'
miRNA:   3'- guaCaGCAGCUCGaGCU---UGCuuAGCU- -5'
28097 3' -49.5 NC_005887.1 + 21895 0.67 0.895937
Target:  5'- ---aUUGcCGAGCgugUUGGACGAAUCGAa -3'
miRNA:   3'- guacAGCaGCUCG---AGCUUGCUUAGCU- -5'
28097 3' -49.5 NC_005887.1 + 25260 0.71 0.701189
Target:  5'- --cGUCGUCGAGguauugCGAGCG-GUCGAg -3'
miRNA:   3'- guaCAGCAGCUCga----GCUUGCuUAGCU- -5'
28097 3' -49.5 NC_005887.1 + 27199 0.71 0.723679
Target:  5'- cCAUGcCGUCGAGCgccUGcAugGggUCGGu -3'
miRNA:   3'- -GUACaGCAGCUCGa--GC-UugCuuAGCU- -5'
28097 3' -49.5 NC_005887.1 + 28787 0.7 0.75663
Target:  5'- --cGUCGUCGGccuGCUCGGGCGGcagcgcAUCGc -3'
miRNA:   3'- guaCAGCAGCU---CGAGCUUGCU------UAGCu -5'
28097 3' -49.5 NC_005887.1 + 30454 0.67 0.910125
Target:  5'- gCAUGUUGcCGGGCUgGAacaggcggugcGCGAcgCGGc -3'
miRNA:   3'- -GUACAGCaGCUCGAgCU-----------UGCUuaGCU- -5'
28097 3' -49.5 NC_005887.1 + 31291 0.76 0.443955
Target:  5'- ---cUCGUCGAGCUCGAcCGGcAUCGGc -3'
miRNA:   3'- guacAGCAGCUCGAGCUuGCU-UAGCU- -5'
28097 3' -49.5 NC_005887.1 + 31835 0.73 0.574848
Target:  5'- aCAUGUCGUCGGGaCUcCGAuaugcACG-AUCGAu -3'
miRNA:   3'- -GUACAGCAGCUC-GA-GCU-----UGCuUAGCU- -5'
28097 3' -49.5 NC_005887.1 + 33877 0.66 0.942402
Target:  5'- aCGUGUCGUCGccgAgcgguugcgccgggcGCUCGAucgcguugacGCGGAUCGc -3'
miRNA:   3'- -GUACAGCAGC---U---------------CGAGCU----------UGCUUAGCu -5'
28097 3' -49.5 NC_005887.1 + 33904 0.68 0.846552
Target:  5'- --gGUCGUCGuGCUCGGGagugaagccuuCGcGUCGAc -3'
miRNA:   3'- guaCAGCAGCuCGAGCUU-----------GCuUAGCU- -5'
28097 3' -49.5 NC_005887.1 + 34463 0.69 0.798544
Target:  5'- --cGUCGcCGGccuGCUCGucgGACGAGUCGGa -3'
miRNA:   3'- guaCAGCaGCU---CGAGC---UUGCUUAGCU- -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.