miRNA display CGI


Results 1 - 20 of 23 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
28486 5' -66.4 NC_005946.1 + 22980 0.66 0.38868
Target:  5'- uACUCCaGGCACagggaggccuuCAgGGCCCCGgaGCCa -3'
miRNA:   3'- cUGAGGgCCGUG-----------GUgCCGGGGC--CGGc -5'
28486 5' -66.4 NC_005946.1 + 56454 0.66 0.38868
Target:  5'- cGGCUCCCGuGaaccccuCCAgGGCCCUGGaggggaCGg -3'
miRNA:   3'- -CUGAGGGC-Cgu-----GGUgCCGGGGCCg-----GC- -5'
28486 5' -66.4 NC_005946.1 + 8029 0.66 0.380752
Target:  5'- gGAC-CCUGGCuCCGuccUGGCCUgUGGCCGg -3'
miRNA:   3'- -CUGaGGGCCGuGGU---GCCGGG-GCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 85188 0.66 0.380752
Target:  5'- cACcagCCUGGCcgGCCucgaGGCCCUGGUCGc -3'
miRNA:   3'- cUGa--GGGCCG--UGGug--CCGGGGCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 83713 0.66 0.379965
Target:  5'- cGGCUaCCCucgggcuGGCuGCCcUGGCCgCGGCCGc -3'
miRNA:   3'- -CUGA-GGG-------CCG-UGGuGCCGGgGCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 86496 0.66 0.372933
Target:  5'- uACggaCCGGCguuCACGGCCCUGuGCCu -3'
miRNA:   3'- cUGag-GGCCGug-GUGCCGGGGC-CGGc -5'
28486 5' -66.4 NC_005946.1 + 41092 0.66 0.365223
Target:  5'- uGCUCCCuugucgccccugGGUcCCACGcGCCcgacuggaCCGGCCGa -3'
miRNA:   3'- cUGAGGG------------CCGuGGUGC-CGG--------GGCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 11891 0.66 0.357625
Target:  5'- uGAUUgCCagGGC-CCGCagggacGCCCCGGCCGu -3'
miRNA:   3'- -CUGAgGG--CCGuGGUGc-----CGGGGCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 66071 0.66 0.350138
Target:  5'- gGGCU-CUGGCuaugGCCGCGGCUgCGGCgGc -3'
miRNA:   3'- -CUGAgGGCCG----UGGUGCCGGgGCCGgC- -5'
28486 5' -66.4 NC_005946.1 + 55999 0.67 0.342763
Target:  5'- uGGCaggggCCaCGGCACCGCaaGGCCCCGuucCCa -3'
miRNA:   3'- -CUGa----GG-GCCGUGGUG--CCGGGGCc--GGc -5'
28486 5' -66.4 NC_005946.1 + 49743 0.67 0.342032
Target:  5'- aGACUCCUgucacuggGGCcucggggauggcgACUGCGGCUgUGGCCGa -3'
miRNA:   3'- -CUGAGGG--------CCG-------------UGGUGCCGGgGCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 22863 0.67 0.334062
Target:  5'- cGCUCCCcuCACCACGGCagacaacaucaUGGCCGg -3'
miRNA:   3'- cUGAGGGccGUGGUGCCGgg---------GCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 26467 0.67 0.321316
Target:  5'- cGCUCCUgGGCuggACCACGaccGCCCUGGCg- -3'
miRNA:   3'- cUGAGGG-CCG---UGGUGC---CGGGGCCGgc -5'
28486 5' -66.4 NC_005946.1 + 43079 0.68 0.285917
Target:  5'- cGGCUCCUcacagcccgucaugGGCucaaaauCCAUGGCCCUguaGGCCa -3'
miRNA:   3'- -CUGAGGG--------------CCGu------GGUGCCGGGG---CCGGc -5'
28486 5' -66.4 NC_005946.1 + 38080 0.68 0.269099
Target:  5'- -uUUCCCGGCcucaggAUUAUGGCCCCcGCCa -3'
miRNA:   3'- cuGAGGGCCG------UGGUGCCGGGGcCGGc -5'
28486 5' -66.4 NC_005946.1 + 63527 0.69 0.251358
Target:  5'- -uCUCCCGGgACCaACGGgaCCCUuugGGCCGu -3'
miRNA:   3'- cuGAGGGCCgUGG-UGCC--GGGG---CCGGC- -5'
28486 5' -66.4 NC_005946.1 + 70268 0.7 0.208743
Target:  5'- aGugUCCaGGgACagguccccaaaCACGGUCCCGGCCGc -3'
miRNA:   3'- -CugAGGgCCgUG-----------GUGCCGGGGCCGGC- -5'
28486 5' -66.4 NC_005946.1 + 1517 0.7 0.203878
Target:  5'- uACUCCCacGGCGuCCgcgGCGGCCCUcagGGCCa -3'
miRNA:   3'- cUGAGGG--CCGU-GG---UGCCGGGG---CCGGc -5'
28486 5' -66.4 NC_005946.1 + 76922 0.7 0.203878
Target:  5'- uGCUgCUCGGCucCCACGGCguacCCUGGCCa -3'
miRNA:   3'- cUGA-GGGCCGu-GGUGCCG----GGGCCGGc -5'
28486 5' -66.4 NC_005946.1 + 61681 0.7 0.19864
Target:  5'- aGCUCCCuGGCgcucacagugugaGCCACGGCCCCcgacuuugGGUCc -3'
miRNA:   3'- cUGAGGG-CCG-------------UGGUGCCGGGG--------CCGGc -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.