miRNA display CGI


Results 1 - 20 of 22 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
32087 5' -55.9 NC_007016.1 + 57633 0.66 0.857931
Target:  5'- cUCGuGCUCgaccacacACGCAAACACaaACCCGGu -3'
miRNA:   3'- aAGC-CGAG--------UGCGUUUGUGgcUGGGUU- -5'
32087 5' -55.9 NC_007016.1 + 8970 0.66 0.857931
Target:  5'- cUCGGCUCGaauaucuuugcCGCAAACugCGcucuagcucCCCGAg -3'
miRNA:   3'- aAGCCGAGU-----------GCGUUUGugGCu--------GGGUU- -5'
32087 5' -55.9 NC_007016.1 + 130523 0.66 0.857931
Target:  5'- cUCGG-UCGCGCcccGGgGCCGGCCCc- -3'
miRNA:   3'- aAGCCgAGUGCGu--UUgUGGCUGGGuu -5'
32087 5' -55.9 NC_007016.1 + 116131 0.66 0.857931
Target:  5'- cUCGGUggcCGgGCAGAgGCCGGCCg-- -3'
miRNA:   3'- aAGCCGa--GUgCGUUUgUGGCUGGguu -5'
32087 5' -55.9 NC_007016.1 + 15438 0.66 0.857931
Target:  5'- -gCGGUUUcgcgucgucuACGguGACACCGACUCGc -3'
miRNA:   3'- aaGCCGAG----------UGCguUUGUGGCUGGGUu -5'
32087 5' -55.9 NC_007016.1 + 17136 0.66 0.84987
Target:  5'- -gCGGC-CGCGUAuuggggguguACGCCGACgCCGAa -3'
miRNA:   3'- aaGCCGaGUGCGUu---------UGUGGCUG-GGUU- -5'
32087 5' -55.9 NC_007016.1 + 71696 0.66 0.833124
Target:  5'- --gGGCUaACGCGAGCACaauuGACCCc- -3'
miRNA:   3'- aagCCGAgUGCGUUUGUGg---CUGGGuu -5'
32087 5' -55.9 NC_007016.1 + 85643 0.66 0.833124
Target:  5'- --gGGCUCucccGCGCAGGCugC-ACCCGGa -3'
miRNA:   3'- aagCCGAG----UGCGUUUGugGcUGGGUU- -5'
32087 5' -55.9 NC_007016.1 + 117479 0.67 0.815602
Target:  5'- gUUGGCaaGCGCc-GCACCGgACCCAu -3'
miRNA:   3'- aAGCCGagUGCGuuUGUGGC-UGGGUu -5'
32087 5' -55.9 NC_007016.1 + 116507 0.67 0.797371
Target:  5'- aUCGGCgccaccucacUCACGCAAGCggcguACCGGCgCGc -3'
miRNA:   3'- aAGCCG----------AGUGCGUUUG-----UGGCUGgGUu -5'
32087 5' -55.9 NC_007016.1 + 40566 0.67 0.777546
Target:  5'- --gGGUUCAcgacgucCGCAAACACCGGgCCGu -3'
miRNA:   3'- aagCCGAGU-------GCGUUUGUGGCUgGGUu -5'
32087 5' -55.9 NC_007016.1 + 118187 0.67 0.768858
Target:  5'- -gCGGCUCACGgAGGCuuaauaccaacgACCGGCUUAAc -3'
miRNA:   3'- aaGCCGAGUGCgUUUG------------UGGCUGGGUU- -5'
32087 5' -55.9 NC_007016.1 + 27536 0.68 0.759081
Target:  5'- -aCGGCUCGCGgGGgacucGCGagCGGCCCAAa -3'
miRNA:   3'- aaGCCGAGUGCgUU-----UGUg-GCUGGGUU- -5'
32087 5' -55.9 NC_007016.1 + 42308 0.68 0.73918
Target:  5'- -gCGGCUgACGC--GCAUCGAuCCCAu -3'
miRNA:   3'- aaGCCGAgUGCGuuUGUGGCU-GGGUu -5'
32087 5' -55.9 NC_007016.1 + 124495 0.68 0.718881
Target:  5'- gUgGGC-CACGCAuuguCCGACCCAc -3'
miRNA:   3'- aAgCCGaGUGCGUuuguGGCUGGGUu -5'
32087 5' -55.9 NC_007016.1 + 92541 0.69 0.712727
Target:  5'- -cUGGCUCugGUcuacaaacggagcccGcGCACCGGCCCGc -3'
miRNA:   3'- aaGCCGAGugCG---------------UuUGUGGCUGGGUu -5'
32087 5' -55.9 NC_007016.1 + 81314 0.69 0.708609
Target:  5'- -cCGGCUCccacCGCAccaguguacugAACACCGGCaCCAAc -3'
miRNA:   3'- aaGCCGAGu---GCGU-----------UUGUGGCUG-GGUU- -5'
32087 5' -55.9 NC_007016.1 + 93243 0.69 0.656408
Target:  5'- cUCGGCUUugGCuaccuuGACGCCGagaGCgCCAAg -3'
miRNA:   3'- aAGCCGAGugCGu-----UUGUGGC---UG-GGUU- -5'
32087 5' -55.9 NC_007016.1 + 40884 0.7 0.635317
Target:  5'- aUUGGCcUACGCuAACACCuGCCCGAu -3'
miRNA:   3'- aAGCCGaGUGCGuUUGUGGcUGGGUU- -5'
32087 5' -55.9 NC_007016.1 + 43489 0.7 0.624763
Target:  5'- aUUGGgUUAacCGCAAACACCaGACCCGGu -3'
miRNA:   3'- aAGCCgAGU--GCGUUUGUGG-CUGGGUU- -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.