miRNA display CGI


Results 1 - 20 of 32 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
24006 3' -56.2 NC_005262.1 + 19636 0.66 0.706459
Target:  5'- uUGCcggaGGCAUGccaaaAAUGCGGUguaauuggCCGCGUu -3'
miRNA:   3'- -ACG----CCGUAC-----UUACGCCGaa------GGCGCAc -5'
24006 3' -56.2 NC_005262.1 + 43912 0.66 0.69573
Target:  5'- cGCGGCcgGcccGCGGCcgugucgCCGCGa- -3'
miRNA:   3'- aCGCCGuaCuuaCGCCGaa-----GGCGCac -5'
24006 3' -56.2 NC_005262.1 + 46580 0.66 0.69573
Target:  5'- cGCGGUcgGAGUGCucaugucgacgGGCUg-CGuCGUGg -3'
miRNA:   3'- aCGCCGuaCUUACG-----------CCGAagGC-GCAC- -5'
24006 3' -56.2 NC_005262.1 + 1969 0.66 0.684941
Target:  5'- -cCGGCA--GAUGCGGCaugCCGUGUu -3'
miRNA:   3'- acGCCGUacUUACGCCGaa-GGCGCAc -5'
24006 3' -56.2 NC_005262.1 + 49222 0.66 0.684941
Target:  5'- gGCGGCcucg--GCGGCgcgcagUCCGCGc- -3'
miRNA:   3'- aCGCCGuacuuaCGCCGa-----AGGCGCac -5'
24006 3' -56.2 NC_005262.1 + 23356 0.66 0.674102
Target:  5'- gGcCGGCGUGAAgcgcgcgGCGGCgaaggcCCGCaacGUGa -3'
miRNA:   3'- aC-GCCGUACUUa------CGCCGaa----GGCG---CAC- -5'
24006 3' -56.2 NC_005262.1 + 24328 0.66 0.674102
Target:  5'- gGuCGGCGcGAucgacAUGCGGC-UCUGCGUc -3'
miRNA:   3'- aC-GCCGUaCU-----UACGCCGaAGGCGCAc -5'
24006 3' -56.2 NC_005262.1 + 22318 0.66 0.674102
Target:  5'- gGcCGGCGUGg--GCGGCgcggCCGUGa- -3'
miRNA:   3'- aC-GCCGUACuuaCGCCGaa--GGCGCac -5'
24006 3' -56.2 NC_005262.1 + 48523 0.66 0.674102
Target:  5'- cGCGcGCGUGGucAUGCcGCcgUCCGuCGUGu -3'
miRNA:   3'- aCGC-CGUACU--UACGcCGa-AGGC-GCAC- -5'
24006 3' -56.2 NC_005262.1 + 15612 0.66 0.671929
Target:  5'- gUGCGGCA-GGAgcgcaucgaggcGCGGCUgaaCGCGUc -3'
miRNA:   3'- -ACGCCGUaCUUa-----------CGCCGAag-GCGCAc -5'
24006 3' -56.2 NC_005262.1 + 21632 0.66 0.667579
Target:  5'- gGCGGCAUcugcuucaggaccgcGAGcUGCaccGCUUCCGUGUa -3'
miRNA:   3'- aCGCCGUA---------------CUU-ACGc--CGAAGGCGCAc -5'
24006 3' -56.2 NC_005262.1 + 13518 0.67 0.640298
Target:  5'- gGCGGCAUGAgauacggaagcguGUgcaGCGGCaucgaggCCGCGa- -3'
miRNA:   3'- aCGCCGUACU-------------UA---CGCCGaa-----GGCGCac -5'
24006 3' -56.2 NC_005262.1 + 5452 0.67 0.619525
Target:  5'- cGCGGCAUGAccucGCGGCgaaccucgCCGUu-- -3'
miRNA:   3'- aCGCCGUACUua--CGCCGaa------GGCGcac -5'
24006 3' -56.2 NC_005262.1 + 10858 0.67 0.619525
Target:  5'- gGCGGCAUGAGUGagGGCgcgguaaUGgGUGc -3'
miRNA:   3'- aCGCCGUACUUACg-CCGaag----GCgCAC- -5'
24006 3' -56.2 NC_005262.1 + 53209 0.67 0.597702
Target:  5'- cGCGGCAUc---GCGGUUUUCGUGa- -3'
miRNA:   3'- aCGCCGUAcuuaCGCCGAAGGCGCac -5'
24006 3' -56.2 NC_005262.1 + 42153 0.67 0.58683
Target:  5'- gGcCGGCggGAAU-CGuGCUgaUCCGCGUGa -3'
miRNA:   3'- aC-GCCGuaCUUAcGC-CGA--AGGCGCAC- -5'
24006 3' -56.2 NC_005262.1 + 12591 0.68 0.575995
Target:  5'- cGCGGCAucUGAAgcGCGGUUUCgcucacUGCGUa -3'
miRNA:   3'- aCGCCGU--ACUUa-CGCCGAAG------GCGCAc -5'
24006 3' -56.2 NC_005262.1 + 49574 0.68 0.55447
Target:  5'- cUGCGcGCAccgccggaGAAUGCGcGCUUCaGCGUGc -3'
miRNA:   3'- -ACGC-CGUa-------CUUACGC-CGAAGgCGCAC- -5'
24006 3' -56.2 NC_005262.1 + 23407 0.68 0.550192
Target:  5'- gGCGGCG---AUGCGGCgggcagcaugagCCGCGUc -3'
miRNA:   3'- aCGCCGUacuUACGCCGaa----------GGCGCAc -5'
24006 3' -56.2 NC_005262.1 + 29732 0.68 0.543795
Target:  5'- gGCGGCAUGccgcucgcugccGAUGcCGGUUgCgGCGUGu -3'
miRNA:   3'- aCGCCGUAC------------UUAC-GCCGAaGgCGCAC- -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.