miRNA display CGI


Results 1 - 16 of 16 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
21956 3' -58.1 NC_004914.1 + 46023 0.66 0.644755
Target:  5'- aCCCGAauauuuuuuaccuucCGGCgacaaaugACGCCGAUGAC-GGCu -3'
miRNA:   3'- aGGGCU---------------GCCG--------UGUGGUUGCUGaCCGc -5'
21956 3' -58.1 NC_004914.1 + 13544 0.66 0.629875
Target:  5'- uUUCCGuucugaauaACGGCACuCCGGauaACUGGCGa -3'
miRNA:   3'- -AGGGC---------UGCCGUGuGGUUgc-UGACCGC- -5'
21956 3' -58.1 NC_004914.1 + 37641 0.66 0.629875
Target:  5'- cCCUGAaaGCACA---GCGGCUGGCu -3'
miRNA:   3'- aGGGCUgcCGUGUgguUGCUGACCGc -5'
21956 3' -58.1 NC_004914.1 + 5315 0.66 0.629875
Target:  5'- gUCCUGuACGuCACGCCGcgucaguggaAUGACUGGUa -3'
miRNA:   3'- -AGGGC-UGCcGUGUGGU----------UGCUGACCGc -5'
21956 3' -58.1 NC_004914.1 + 58886 0.66 0.628812
Target:  5'- aCCCGcaccaucACGGUAUGCUGugGugUGGUu -3'
miRNA:   3'- aGGGC-------UGCCGUGUGGUugCugACCGc -5'
21956 3' -58.1 NC_004914.1 + 238 0.66 0.608631
Target:  5'- -gCUGACGGCACAggauuauaaauuCCAuuuuuACGcCUGGUGg -3'
miRNA:   3'- agGGCUGCCGUGU------------GGU-----UGCuGACCGC- -5'
21956 3' -58.1 NC_004914.1 + 59166 0.66 0.608631
Target:  5'- aUCCCGuCGugaccaggagaGCGCGCUGGCGuGCUGGgGa -3'
miRNA:   3'- -AGGGCuGC-----------CGUGUGGUUGC-UGACCgC- -5'
21956 3' -58.1 NC_004914.1 + 35568 0.67 0.566433
Target:  5'- -gCUGGCugugcaaaagaGGCGCGCaagGAUGGCUGGCGa -3'
miRNA:   3'- agGGCUG-----------CCGUGUGg--UUGCUGACCGC- -5'
21956 3' -58.1 NC_004914.1 + 55330 0.67 0.545602
Target:  5'- aCCUGGCggauauGGCAgGCCAguGCGucgguggcucuGCUGGCGg -3'
miRNA:   3'- aGGGCUG------CCGUgUGGU--UGC-----------UGACCGC- -5'
21956 3' -58.1 NC_004914.1 + 49909 0.68 0.514844
Target:  5'- gCCUGACGG---GCCGACGAaccuuCUGGCa -3'
miRNA:   3'- aGGGCUGCCgugUGGUUGCU-----GACCGc -5'
21956 3' -58.1 NC_004914.1 + 1845 0.68 0.491749
Target:  5'- uUCCCGGgaaUGGCucagguuaucgauuAUGCCAuugAUGACUGGCGu -3'
miRNA:   3'- -AGGGCU---GCCG--------------UGUGGU---UGCUGACCGC- -5'
21956 3' -58.1 NC_004914.1 + 55101 0.69 0.465266
Target:  5'- -gCCGAUGGCACAUaCAgugacGCGAgUGGUGc -3'
miRNA:   3'- agGGCUGCCGUGUG-GU-----UGCUgACCGC- -5'
21956 3' -58.1 NC_004914.1 + 57048 0.69 0.427452
Target:  5'- gCCCGu--GCGCAgcaCGACGACUGGCu -3'
miRNA:   3'- aGGGCugcCGUGUg--GUUGCUGACCGc -5'
21956 3' -58.1 NC_004914.1 + 38071 0.69 0.418286
Target:  5'- cUCCCGAUGGUuuauGCAgUGACGGCaaUGGCc -3'
miRNA:   3'- -AGGGCUGCCG----UGUgGUUGCUG--ACCGc -5'
21956 3' -58.1 NC_004914.1 + 60240 0.75 0.193384
Target:  5'- gUCCUGGCGGUugGCUAugGugcgcugugGCUGGCa -3'
miRNA:   3'- -AGGGCUGCCGugUGGUugC---------UGACCGc -5'
21956 3' -58.1 NC_004914.1 + 6928 1.09 0.000645
Target:  5'- cUCCCGACGGCACACCAACGACUGGCGg -3'
miRNA:   3'- -AGGGCUGCCGUGUGGUUGCUGACCGC- -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.