miRNA display CGI


Results 1 - 20 of 33 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
28053 5' -54.5 NC_005887.1 + 41398 0.67 0.60376
Target:  5'- uCGUGCUGCACGCCuucgccGAagcacucGGGGCa- -3'
miRNA:   3'- cGCACGACGUGUGGua----CUa------CCUCGcg -5'
28053 5' -54.5 NC_005887.1 + 14800 1.13 0.000433
Target:  5'- uGCGUGCUGCACACCAUGAUGGAGCGCc -3'
miRNA:   3'- -CGCACGACGUGUGGUACUACCUCGCG- -5'
28053 5' -54.5 NC_005887.1 + 26466 0.66 0.69406
Target:  5'- cGCGU-CgaGCGCACCGagcUGcUGGuGCGCc -3'
miRNA:   3'- -CGCAcGa-CGUGUGGU---ACuACCuCGCG- -5'
28053 5' -54.5 NC_005887.1 + 31457 0.66 0.671631
Target:  5'- uGCGccgGCUGCagguGCACCGacagGAUgugcucGGGGCGUa -3'
miRNA:   3'- -CGCa--CGACG----UGUGGUa---CUA------CCUCGCG- -5'
28053 5' -54.5 NC_005887.1 + 28327 0.66 0.671631
Target:  5'- uGCGccgGCgGCGCGCCGgcgGuugcGGAGgCGCg -3'
miRNA:   3'- -CGCa--CGaCGUGUGGUa--Cua--CCUC-GCG- -5'
28053 5' -54.5 NC_005887.1 + 5445 0.66 0.671631
Target:  5'- aCGUGUUcGUGaaaGCCGUGAUGGAugauGUGCc -3'
miRNA:   3'- cGCACGA-CGUg--UGGUACUACCU----CGCG- -5'
28053 5' -54.5 NC_005887.1 + 1830 0.66 0.660352
Target:  5'- cGC-UGCcGCGCGCCGcgUGGUGGA-UGCc -3'
miRNA:   3'- -CGcACGaCGUGUGGU--ACUACCUcGCG- -5'
28053 5' -54.5 NC_005887.1 + 14130 0.66 0.659222
Target:  5'- cGCGcGCUGCucaaaacCGCCGagacgcgcggcgcUGAUGcGGCGCa -3'
miRNA:   3'- -CGCaCGACGu------GUGGU-------------ACUACcUCGCG- -5'
28053 5' -54.5 NC_005887.1 + 18952 0.66 0.637721
Target:  5'- cGCGcUGCUGCGgcUGCCAgc--GGcAGCGCg -3'
miRNA:   3'- -CGC-ACGACGU--GUGGUacuaCC-UCGCG- -5'
28053 5' -54.5 NC_005887.1 + 1670 0.73 0.284704
Target:  5'- cCGUGCgcGCGCGCCAggugcagGAUGGuGCGg -3'
miRNA:   3'- cGCACGa-CGUGUGGUa------CUACCuCGCg -5'
28053 5' -54.5 NC_005887.1 + 30341 0.71 0.384218
Target:  5'- gGCGUGC-GUGCGCCG-GAUGucugcaacguGGGCGCg -3'
miRNA:   3'- -CGCACGaCGUGUGGUaCUAC----------CUCGCG- -5'
28053 5' -54.5 NC_005887.1 + 30620 0.71 0.402897
Target:  5'- uGCGUGCauucgUGCGCGCCGUGc----GCGCg -3'
miRNA:   3'- -CGCACG-----ACGUGUGGUACuaccuCGCG- -5'
28053 5' -54.5 NC_005887.1 + 37187 0.68 0.574505
Target:  5'- cGCGUGCcaucagcaucagcgGCGCGCCGacgucgGGcAGCGCg -3'
miRNA:   3'- -CGCACGa-------------CGUGUGGUacua--CC-UCGCG- -5'
28053 5' -54.5 NC_005887.1 + 14506 0.71 0.384218
Target:  5'- ---aGCUGCGCACCGUucccGAaGGGGCGa -3'
miRNA:   3'- cgcaCGACGUGUGGUA----CUaCCUCGCg -5'
28053 5' -54.5 NC_005887.1 + 23001 0.68 0.547796
Target:  5'- cGCGUcuGCUGCGCGagCAUGGUcagcuuaucGAGCGCc -3'
miRNA:   3'- -CGCA--CGACGUGUg-GUACUAc--------CUCGCG- -5'
28053 5' -54.5 NC_005887.1 + 40938 0.7 0.441927
Target:  5'- cGCGUucgucuugccGCUGCcgaGCGggcCCAUGAUGaacGAGCGCg -3'
miRNA:   3'- -CGCA----------CGACG---UGU---GGUACUAC---CUCGCG- -5'
28053 5' -54.5 NC_005887.1 + 12745 0.73 0.299769
Target:  5'- gGCGUGaaccaGUACACCcgGAagUGGcAGCGCa -3'
miRNA:   3'- -CGCACga---CGUGUGGuaCU--ACC-UCGCG- -5'
28053 5' -54.5 NC_005887.1 + 29608 0.68 0.53678
Target:  5'- cGCGuUGCaGCGCGgCGcGAUcGAGCGCa -3'
miRNA:   3'- -CGC-ACGaCGUGUgGUaCUAcCUCGCG- -5'
28053 5' -54.5 NC_005887.1 + 36873 0.69 0.462228
Target:  5'- -gGUGCUGCGCcaucgGCCugcgucGUGGUGGAuGCGg -3'
miRNA:   3'- cgCACGACGUG-----UGG------UACUACCU-CGCg -5'
28053 5' -54.5 NC_005887.1 + 30900 0.67 0.625259
Target:  5'- cGCGaGCUGCGCGuugcgauCCAUGAUcgcGGccuguuGCGCu -3'
miRNA:   3'- -CGCaCGACGUGU-------GGUACUA---CCu-----CGCG- -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.