miRNA display CGI


Results 1 - 20 of 25 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
12346 3' -57.7 NC_003324.1 + 9561 0.66 0.582307
Target:  5'- -aGUGGGuCUggGGUGGCgAUGCC-GCa -3'
miRNA:   3'- uaCGCCC-GAuaCCGCUGaUACGGcCG- -5'
12346 3' -57.7 NC_003324.1 + 34610 0.66 0.549954
Target:  5'- -cGgGaGGCgcugGGCGAUUccGCUGGCg -3'
miRNA:   3'- uaCgC-CCGaua-CCGCUGAuaCGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 44618 0.66 0.549954
Target:  5'- uGUGUGGGaagccuUGGCuGACUgcccaugcgAUGCCGGg -3'
miRNA:   3'- -UACGCCCgau---ACCG-CUGA---------UACGGCCg -5'
12346 3' -57.7 NC_003324.1 + 53188 0.66 0.539288
Target:  5'- cAUGUGGuggGUGGUaGCUGgcgGCCGGCu -3'
miRNA:   3'- -UACGCCcgaUACCGcUGAUa--CGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 21034 0.67 0.507744
Target:  5'- -gGCGGG----GGCGAaaucggcacCUAUGCCGGUu -3'
miRNA:   3'- uaCGCCCgauaCCGCU---------GAUACGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 41352 0.67 0.506705
Target:  5'- --uCGGcGCUGggGGCGGCUuaaugaaGUaGCCGGCa -3'
miRNA:   3'- uacGCC-CGAUa-CCGCUGA-------UA-CGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 29483 0.67 0.487154
Target:  5'- cUGCGGGCgcgucgGGCGcauCUcgGuaaCCGGCu -3'
miRNA:   3'- uACGCCCGaua---CCGCu--GAuaC---GGCCG- -5'
12346 3' -57.7 NC_003324.1 + 30318 0.67 0.466967
Target:  5'- gGUGUcGGCgGUGGCGucGCUcggcgcGUGCUGGCu -3'
miRNA:   3'- -UACGcCCGaUACCGC--UGA------UACGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 9220 0.67 0.466967
Target:  5'- uUGCGGcGC---GGUGAUgcUGCCGGUa -3'
miRNA:   3'- uACGCC-CGauaCCGCUGauACGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 50602 0.67 0.466967
Target:  5'- -cGCGGGUgcUGGCuGC-GUGCCaGCg -3'
miRNA:   3'- uaCGCCCGauACCGcUGaUACGGcCG- -5'
12346 3' -57.7 NC_003324.1 + 24295 0.67 0.463976
Target:  5'- -gGCGGaGCU-UGGCGaaggcgucgcggacGCgcaccAUGCCGGCa -3'
miRNA:   3'- uaCGCC-CGAuACCGC--------------UGa----UACGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 24438 0.69 0.39725
Target:  5'- -cGCaGGCUGUGGCGuucccgaaugacACgucgaaggaccgcguUGCCGGCa -3'
miRNA:   3'- uaCGcCCGAUACCGC------------UGau-------------ACGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 43194 0.69 0.373211
Target:  5'- cUGCGGGaCUuUGGC-AUUAUGCCcgcuGGCg -3'
miRNA:   3'- uACGCCC-GAuACCGcUGAUACGG----CCG- -5'
12346 3' -57.7 NC_003324.1 + 18804 0.69 0.373211
Target:  5'- -cGCGGGUccAUGGCGcgGCgaagGUCGGCg -3'
miRNA:   3'- uaCGCCCGa-UACCGC--UGaua-CGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 37979 0.7 0.339456
Target:  5'- aAUGUugagGGGUUA-GGCGGCcAUGCCGGa -3'
miRNA:   3'- -UACG----CCCGAUaCCGCUGaUACGGCCg -5'
12346 3' -57.7 NC_003324.1 + 14433 0.7 0.323428
Target:  5'- -cGCccGGCUcUGGCGcCcAUGCCGGCg -3'
miRNA:   3'- uaCGc-CCGAuACCGCuGaUACGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 38824 0.7 0.323428
Target:  5'- cGUGCGGGUccAUGGCGuauucGUCGGCg -3'
miRNA:   3'- -UACGCCCGa-UACCGCugauaCGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 18992 0.71 0.307971
Target:  5'- -aGCGGGaaaUAcGGCGGCUGcacgcgGCUGGCc -3'
miRNA:   3'- uaCGCCCg--AUaCCGCUGAUa-----CGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 9869 0.71 0.285854
Target:  5'- -gGCGGGgUGUGGCGGauacgaggUUAcGCCGGUu -3'
miRNA:   3'- uaCGCCCgAUACCGCU--------GAUaCGGCCG- -5'
12346 3' -57.7 NC_003324.1 + 42913 0.71 0.285854
Target:  5'- -cGCgGGGCgaccauUGGCGgucACUGcGCCGGCg -3'
miRNA:   3'- uaCG-CCCGau----ACCGC---UGAUaCGGCCG- -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.