miRNA display CGI


Results 1 - 20 of 24 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
8496 3' -58 NC_002169.1 + 25983 0.66 0.861875
Target:  5'- cCGGucGGCGGCGCCgGCUGCgcauagauUGUgCGGa -3'
miRNA:   3'- aGCU--UUGCUGCGGgCGACG--------GCA-GCCc -5'
8496 3' -58 NC_002169.1 + 33140 0.66 0.857385
Target:  5'- gUCGAGACGcguggGCGCUgaUGUUGUuaagagucucuccauCGUCGGGa -3'
miRNA:   3'- -AGCUUUGC-----UGCGG--GCGACG---------------GCAGCCC- -5'
8496 3' -58 NC_002169.1 + 37935 0.66 0.854352
Target:  5'- aCGGGAaaGCGgCCGCUGCgGUagacuUGGGg -3'
miRNA:   3'- aGCUUUgcUGCgGGCGACGgCA-----GCCC- -5'
8496 3' -58 NC_002169.1 + 89373 0.66 0.846639
Target:  5'- aUCGGca-GACGCUCGgU-CCGUUGGGc -3'
miRNA:   3'- -AGCUuugCUGCGGGCgAcGGCAGCCC- -5'
8496 3' -58 NC_002169.1 + 44127 0.66 0.846639
Target:  5'- uUCGAcGACGACGUUCGaaacgUGCCGUCu-- -3'
miRNA:   3'- -AGCU-UUGCUGCGGGCg----ACGGCAGccc -5'
8496 3' -58 NC_002169.1 + 46952 0.66 0.83066
Target:  5'- gCGAuGCGAcCGCCCGaguUGCCGgUGGu -3'
miRNA:   3'- aGCUuUGCU-GCGGGCg--ACGGCaGCCc -5'
8496 3' -58 NC_002169.1 + 74286 0.66 0.83066
Target:  5'- uUCuAGACGACGgCCGUggGCCGaagCGGa -3'
miRNA:   3'- -AGcUUUGCUGCgGGCGa-CGGCa--GCCc -5'
8496 3' -58 NC_002169.1 + 26139 0.67 0.805423
Target:  5'- uUCGAAAUaGCucgGUUCGUgcacgGCCGUCGGGc -3'
miRNA:   3'- -AGCUUUGcUG---CGGGCGa----CGGCAGCCC- -5'
8496 3' -58 NC_002169.1 + 45916 0.67 0.796701
Target:  5'- aUCGAGACGAUGaUCUGC-GUCGUCcGGc -3'
miRNA:   3'- -AGCUUUGCUGC-GGGCGaCGGCAGcCC- -5'
8496 3' -58 NC_002169.1 + 78148 0.67 0.796701
Target:  5'- aUCGAGcagauauuCGA-GCCCGCcgagccGCCGUCGGu -3'
miRNA:   3'- -AGCUUu-------GCUgCGGGCGa-----CGGCAGCCc -5'
8496 3' -58 NC_002169.1 + 97098 0.67 0.787837
Target:  5'- gUCGAcgguguugacGGCGAUGCggucgaCGCUGCCGaCGGu -3'
miRNA:   3'- -AGCU----------UUGCUGCGg-----GCGACGGCaGCCc -5'
8496 3' -58 NC_002169.1 + 110018 0.67 0.77884
Target:  5'- gUCGAAugGGCaGCuuGUUGUCGggaauguaGGGg -3'
miRNA:   3'- -AGCUUugCUG-CGggCGACGGCag------CCC- -5'
8496 3' -58 NC_002169.1 + 36218 0.67 0.77884
Target:  5'- aCG--GCGGCGCacauggaCGUuuUGUCGUCGGGa -3'
miRNA:   3'- aGCuuUGCUGCGg------GCG--ACGGCAGCCC- -5'
8496 3' -58 NC_002169.1 + 21762 0.68 0.751131
Target:  5'- -aGAuuCGGCGCCgGCaccuUGUCGaCGGGg -3'
miRNA:   3'- agCUuuGCUGCGGgCG----ACGGCaGCCC- -5'
8496 3' -58 NC_002169.1 + 22661 0.68 0.712831
Target:  5'- aCGAucuGACGAuaguccacuaCGCCCGCuucccaagUGCCGggcaCGGGg -3'
miRNA:   3'- aGCU---UUGCU----------GCGGGCG--------ACGGCa---GCCC- -5'
8496 3' -58 NC_002169.1 + 111672 0.69 0.673482
Target:  5'- aUCGu--CGACGCUgGCgaugGCCGUgaacgCGGGa -3'
miRNA:   3'- -AGCuuuGCUGCGGgCGa---CGGCA-----GCCC- -5'
8496 3' -58 NC_002169.1 + 130783 0.7 0.653582
Target:  5'- cUCGAAGCGugGgCaggaCGCUGUuggCGUCGGu -3'
miRNA:   3'- -AGCUUUGCugC-Gg---GCGACG---GCAGCCc -5'
8496 3' -58 NC_002169.1 + 74014 0.7 0.643603
Target:  5'- gUCGGcGACGAgGCCCG-UGCUGUCGa- -3'
miRNA:   3'- -AGCU-UUGCUgCGGGCgACGGCAGCcc -5'
8496 3' -58 NC_002169.1 + 1075 0.7 0.61165
Target:  5'- uUCGAcGGCGACGCgCCGCUGCaagauacuuaaaGUCGa- -3'
miRNA:   3'- -AGCU-UUGCUGCG-GGCGACGg-----------CAGCcc -5'
8496 3' -58 NC_002169.1 + 107893 0.72 0.534813
Target:  5'- gCGAGACGACGCCCGUUcggaaCC-UCGGu -3'
miRNA:   3'- aGCUUUGCUGCGGGCGAc----GGcAGCCc -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.