miRNA display CGI


Results 1 - 20 of 34 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
11589 3' -62.7 NC_003085.1 + 1064 0.66 0.279584
Target:  5'- ---cGCCGAGGCagacaaugcggcGCUGCucGCCGcGCUCa -3'
miRNA:   3'- caacCGGCUCCG------------UGACG--CGGCcCGAG- -5'
11589 3' -62.7 NC_003085.1 + 1313 0.68 0.211841
Target:  5'- -gUGGCCGcgaaggcuGGCACUGCGauGGcGCUg -3'
miRNA:   3'- caACCGGCu-------CCGUGACGCggCC-CGAg -5'
11589 3' -62.7 NC_003085.1 + 4105 0.67 0.266095
Target:  5'- ---cGCCGcuggaguuGGGCGCcGCGCUGGGaCUCc -3'
miRNA:   3'- caacCGGC--------UCCGUGaCGCGGCCC-GAG- -5'
11589 3' -62.7 NC_003085.1 + 8657 0.68 0.211841
Target:  5'- --cGGCCGGGacGCGCguggccuuggGCGCCGGGgUg -3'
miRNA:   3'- caaCCGGCUC--CGUGa---------CGCGGCCCgAg -5'
11589 3' -62.7 NC_003085.1 + 10006 0.66 0.279584
Target:  5'- aGggGGCgGAGGUAUggGUGgCGGGCa- -3'
miRNA:   3'- -CaaCCGgCUCCGUGa-CGCgGCCCGag -5'
11589 3' -62.7 NC_003085.1 + 11610 0.66 0.272773
Target:  5'- --cGGCgCGaAGGgGCUGUGCagGGGCUg -3'
miRNA:   3'- caaCCG-GC-UCCgUGACGCGg-CCCGAg -5'
11589 3' -62.7 NC_003085.1 + 11646 0.72 0.117902
Target:  5'- --cGcGCgGAgGGCAUUGCGCCGGGUg- -3'
miRNA:   3'- caaC-CGgCU-CCGUGACGCGGCCCGag -5'
11589 3' -62.7 NC_003085.1 + 13108 0.68 0.223012
Target:  5'- --cGcGCUGAGGUGCgugaGCG-CGGGCUCu -3'
miRNA:   3'- caaC-CGGCUCCGUGa---CGCgGCCCGAG- -5'
11589 3' -62.7 NC_003085.1 + 13561 0.68 0.201155
Target:  5'- -cUGGCCGuGGCAUgGCcCUGGGaCUCc -3'
miRNA:   3'- caACCGGCuCCGUGaCGcGGCCC-GAG- -5'
11589 3' -62.7 NC_003085.1 + 16207 0.67 0.253138
Target:  5'- --cGcGCgCGAGG-ACUGaauacuGCCGGGCUCa -3'
miRNA:   3'- caaC-CG-GCUCCgUGACg-----CGGCCCGAG- -5'
11589 3' -62.7 NC_003085.1 + 19061 0.66 0.300829
Target:  5'- --cGGCgCGcGGCggaGCagGCGCCGGGCcCg -3'
miRNA:   3'- caaCCG-GCuCCG---UGa-CGCGGCCCGaG- -5'
11589 3' -62.7 NC_003085.1 + 19216 0.67 0.259551
Target:  5'- cGggGGCUGggcgccgcgcaAGGC-CUGCGCCaGGGC-Ca -3'
miRNA:   3'- -CaaCCGGC-----------UCCGuGACGCGG-CCCGaG- -5'
11589 3' -62.7 NC_003085.1 + 20127 0.68 0.206438
Target:  5'- --cGGCCuaGAGGCGCUGCGCa--GCUa -3'
miRNA:   3'- caaCCGG--CUCCGUGACGCGgccCGAg -5'
11589 3' -62.7 NC_003085.1 + 20172 0.66 0.305962
Target:  5'- -aUGGCCGAGGUguacgcgucguugcGCUGCugGCCgaauucggacuGGGCg- -3'
miRNA:   3'- caACCGGCUCCG--------------UGACG--CGG-----------CCCGag -5'
11589 3' -62.7 NC_003085.1 + 20835 0.68 0.223012
Target:  5'- -cUGGauGAGGCGaccgGCGCCGaGCUCg -3'
miRNA:   3'- caACCggCUCCGUga--CGCGGCcCGAG- -5'
11589 3' -62.7 NC_003085.1 + 22199 0.69 0.19599
Target:  5'- --aGGCCGAGGUgcagggcgaccuGCUGCGCauccaGGCUg -3'
miRNA:   3'- caaCCGGCUCCG------------UGACGCGgc---CCGAg -5'
11589 3' -62.7 NC_003085.1 + 22627 0.66 0.272773
Target:  5'- -gUGGCgGGGGCACacgccugGCGCgcagGGGCaUCa -3'
miRNA:   3'- caACCGgCUCCGUGa------CGCGg---CCCG-AG- -5'
11589 3' -62.7 NC_003085.1 + 23189 0.66 0.293612
Target:  5'- --aGGCCGAgGGCcaggaccCUGUgaaggcagugGCCGGGCUg -3'
miRNA:   3'- caaCCGGCU-CCGu------GACG----------CGGCCCGAg -5'
11589 3' -62.7 NC_003085.1 + 26087 0.68 0.206438
Target:  5'- aGUUGGuuGGGGUcgaagugcugggGCUGCGCCucGGCg- -3'
miRNA:   3'- -CAACCggCUCCG------------UGACGCGGc-CCGag -5'
11589 3' -62.7 NC_003085.1 + 26338 0.67 0.234679
Target:  5'- -cUGcGCCGucuugcGGUGCUGCGCCGccucGCUCa -3'
miRNA:   3'- caAC-CGGCu-----CCGUGACGCGGCc---CGAG- -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.