miRNA display CGI


Results 1 - 20 of 29 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
18290 3' -59.7 NC_004681.1 + 25021 0.66 0.577286
Target:  5'- aGUCgaCGCCGCgCAgaaGGGUGGCa--- -3'
miRNA:   3'- aCAGgaGCGGCG-GUa--UCCACCGccac -5'
18290 3' -59.7 NC_004681.1 + 41675 0.66 0.577286
Target:  5'- cG-CCgugCGCUGCCugcgGGGUGGCGcUGc -3'
miRNA:   3'- aCaGGa--GCGGCGGua--UCCACCGCcAC- -5'
18290 3' -59.7 NC_004681.1 + 50871 0.66 0.566922
Target:  5'- cUGcUCUCGCUugugaGCCA-GGGUGGCGGc- -3'
miRNA:   3'- -ACaGGAGCGG-----CGGUaUCCACCGCCac -5'
18290 3' -59.7 NC_004681.1 + 27458 0.66 0.553522
Target:  5'- gGUUC-CGCCGUUgagggucagcucgaAUGGG-GGCGGUGu -3'
miRNA:   3'- aCAGGaGCGGCGG--------------UAUCCaCCGCCAC- -5'
18290 3' -59.7 NC_004681.1 + 66290 0.66 0.546346
Target:  5'- gGUCCUUGCagCGCCAcaucuGGUacaugcccgcGGUGGUGg -3'
miRNA:   3'- aCAGGAGCG--GCGGUau---CCA----------CCGCCAC- -5'
18290 3' -59.7 NC_004681.1 + 10545 0.67 0.515953
Target:  5'- gGUCCUCcuaGCUaaGCCA-GGGUGGCGaUGa -3'
miRNA:   3'- aCAGGAG---CGG--CGGUaUCCACCGCcAC- -5'
18290 3' -59.7 NC_004681.1 + 20662 0.67 0.515953
Target:  5'- -uUCCgccagCGCCGCCAUuuGUgcGGCGGUu -3'
miRNA:   3'- acAGGa----GCGGCGGUAucCA--CCGCCAc -5'
18290 3' -59.7 NC_004681.1 + 12492 0.67 0.515953
Target:  5'- --aCCgacgagCGUCGCCGc-GGUGGUGGUGc -3'
miRNA:   3'- acaGGa-----GCGGCGGUauCCACCGCCAC- -5'
18290 3' -59.7 NC_004681.1 + 66913 0.67 0.515953
Target:  5'- cUGUCCaUCGUCGUCGUugacucuGUGGCGGc- -3'
miRNA:   3'- -ACAGG-AGCGGCGGUAuc-----CACCGCCac -5'
18290 3' -59.7 NC_004681.1 + 57879 0.67 0.505972
Target:  5'- cGUggUCGCgGUCuccGGUGGCGGUGu -3'
miRNA:   3'- aCAggAGCGgCGGuauCCACCGCCAC- -5'
18290 3' -59.7 NC_004681.1 + 30346 0.67 0.505972
Target:  5'- cGUaCCggcCGCCGCCGcu-GUGGCGGg- -3'
miRNA:   3'- aCA-GGa--GCGGCGGUaucCACCGCCac -5'
18290 3' -59.7 NC_004681.1 + 9420 0.67 0.49509
Target:  5'- aUGUUCUUGCCGCCGUugaccGGGUugccguaGGCGuUGc -3'
miRNA:   3'- -ACAGGAGCGGCGGUA-----UCCA-------CCGCcAC- -5'
18290 3' -59.7 NC_004681.1 + 48028 0.67 0.486265
Target:  5'- cUGUCUUCGCC-CCAUgcgagguagAGGUuGCGGUu -3'
miRNA:   3'- -ACAGGAGCGGcGGUA---------UCCAcCGCCAc -5'
18290 3' -59.7 NC_004681.1 + 40755 0.67 0.486265
Target:  5'- cUGUggaUUCGCCGCCuUAcGUGGCGGa- -3'
miRNA:   3'- -ACAg--GAGCGGCGGuAUcCACCGCCac -5'
18290 3' -59.7 NC_004681.1 + 3046 0.68 0.46693
Target:  5'- gGUCCUCGCUGgugaacUCGgcgcGcGUGGCGGUGc -3'
miRNA:   3'- aCAGGAGCGGC------GGUau--C-CACCGCCAC- -5'
18290 3' -59.7 NC_004681.1 + 18298 0.68 0.442404
Target:  5'- aGUCCUCGaCUGgcggucagcagccuuCCGguucguccGGUGGCGGUGg -3'
miRNA:   3'- aCAGGAGC-GGC---------------GGUau------CCACCGCCAC- -5'
18290 3' -59.7 NC_004681.1 + 47206 0.68 0.420424
Target:  5'- cGUUCUCGUCGCuCAgcGGcGGCGGc- -3'
miRNA:   3'- aCAGGAGCGGCG-GUauCCaCCGCCac -5'
18290 3' -59.7 NC_004681.1 + 65719 0.69 0.411463
Target:  5'- uUGUCCUCGCCacGCCAcu--UGGCGGc- -3'
miRNA:   3'- -ACAGGAGCGG--CGGUauccACCGCCac -5'
18290 3' -59.7 NC_004681.1 + 14670 0.69 0.411463
Target:  5'- gGUgCCgaaggcgacUGCgGCCGU-GGUGGCGGUGg -3'
miRNA:   3'- aCA-GGa--------GCGgCGGUAuCCACCGCCAC- -5'
18290 3' -59.7 NC_004681.1 + 49434 0.69 0.3939
Target:  5'- cGcCCgcggCGCCGCCGU-GGcGGaCGGUGa -3'
miRNA:   3'- aCaGGa---GCGGCGGUAuCCaCC-GCCAC- -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.