miRNA display CGI


Results 1 - 20 of 20 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
27208 3' -64.5 NC_005832.1 + 26446 0.66 0.394137
Target:  5'- gGACAGgaccuggggagugucGGGCagCCACCCggcGGCCCUCGc -3'
miRNA:   3'- -UUGUC---------------CCCGgaGGUGGG---CCGGGAGUu -5'
27208 3' -64.5 NC_005832.1 + 96545 0.66 0.382521
Target:  5'- cGGCGGGGGCagaguaggAUCCGGCUCUCAc -3'
miRNA:   3'- -UUGUCCCCGgagg----UGGGCCGGGAGUu -5'
27208 3' -64.5 NC_005832.1 + 19885 0.66 0.382521
Target:  5'- cACAGGGGCCUgUACaaGGCCgUg-- -3'
miRNA:   3'- uUGUCCCCGGAgGUGggCCGGgAguu -5'
27208 3' -64.5 NC_005832.1 + 41443 0.66 0.374364
Target:  5'- cGGCGGcGGCCUCCuCCuCGG-CCUCAGc -3'
miRNA:   3'- -UUGUCcCCGGAGGuGG-GCCgGGAGUU- -5'
27208 3' -64.5 NC_005832.1 + 615 0.66 0.372746
Target:  5'- cACAGGGGCCccgaccaggacgCCGCCCugGGCuCCUUc- -3'
miRNA:   3'- uUGUCCCCGGa-----------GGUGGG--CCG-GGAGuu -5'
27208 3' -64.5 NC_005832.1 + 711 0.66 0.366326
Target:  5'- --aAGGGGCCccccucgagucCCACUCGGCgCUCAc -3'
miRNA:   3'- uugUCCCCGGa----------GGUGGGCCGgGAGUu -5'
27208 3' -64.5 NC_005832.1 + 90394 0.66 0.36156
Target:  5'- cACGGGGGCCcuccucgacagcuugUCCucgggccuCCCGuCCCUCAGg -3'
miRNA:   3'- uUGUCCCCGG---------------AGGu-------GGGCcGGGAGUU- -5'
27208 3' -64.5 NC_005832.1 + 80611 0.66 0.358407
Target:  5'- uGCgAGGccuGCCUCCugacucacgACCCGGUCCUCAu -3'
miRNA:   3'- uUG-UCCc--CGGAGG---------UGGGCCGGGAGUu -5'
27208 3' -64.5 NC_005832.1 + 5705 0.67 0.320635
Target:  5'- cGugAGaGGGCCUCCACUCGGagggCCUg-- -3'
miRNA:   3'- -UugUC-CCCGGAGGUGGGCCg---GGAguu -5'
27208 3' -64.5 NC_005832.1 + 65450 0.67 0.320635
Target:  5'- uGCA-GGGCCUCCAgCUGcGCCCUg-- -3'
miRNA:   3'- uUGUcCCCGGAGGUgGGC-CGGGAguu -5'
27208 3' -64.5 NC_005832.1 + 1739 0.67 0.320635
Target:  5'- aGACGGuGGacaacuGCCUCCAgCaGGCCCUCAu -3'
miRNA:   3'- -UUGUC-CC------CGGAGGUgGgCCGGGAGUu -5'
27208 3' -64.5 NC_005832.1 + 81294 0.68 0.285925
Target:  5'- uGGCAGGGGCCacggcaCCGCaaGGCCC-CGu -3'
miRNA:   3'- -UUGUCCCCGGa-----GGUGggCCGGGaGUu -5'
27208 3' -64.5 NC_005832.1 + 67185 0.68 0.266559
Target:  5'- -cCAGGucaGGCCUCUuuacGCCCgcGGCCCUCGc -3'
miRNA:   3'- uuGUCC---CCGGAGG----UGGG--CCGGGAGUu -5'
27208 3' -64.5 NC_005832.1 + 82707 0.7 0.204543
Target:  5'- -uUAGaGGGCCUCCGa-CGGUCCUCGAu -3'
miRNA:   3'- uuGUC-CCCGGAGGUggGCCGGGAGUU- -5'
27208 3' -64.5 NC_005832.1 + 40957 0.7 0.199572
Target:  5'- cGGCAGGGuGgCUCCcagguccgGCCUGGCCCUgGAa -3'
miRNA:   3'- -UUGUCCC-CgGAGG--------UGGGCCGGGAgUU- -5'
27208 3' -64.5 NC_005832.1 + 18109 0.71 0.163482
Target:  5'- gGACAGGGcGUCUCUGaguccaCUGGCCCUCAc -3'
miRNA:   3'- -UUGUCCC-CGGAGGUg-----GGCCGGGAGUu -5'
27208 3' -64.5 NC_005832.1 + 36188 0.72 0.155424
Target:  5'- -cCAGGaGCgUCCACCCGGCCCa--- -3'
miRNA:   3'- uuGUCCcCGgAGGUGGGCCGGGaguu -5'
27208 3' -64.5 NC_005832.1 + 101746 0.72 0.140381
Target:  5'- uGguGGGGUCcaagCCcuuCCCGGCCCUCAAa -3'
miRNA:   3'- uUguCCCCGGa---GGu--GGGCCGGGAGUU- -5'
27208 3' -64.5 NC_005832.1 + 94332 0.73 0.120306
Target:  5'- uGGCGGaaagaGGGCCUCCcaGCCCGGCUUUCAc -3'
miRNA:   3'- -UUGUC-----CCCGGAGG--UGGGCCGGGAGUu -5'
27208 3' -64.5 NC_005832.1 + 75513 1.03 0.000623
Target:  5'- aAACAGGGGCCUCCACCCGGCCCUCAAg -3'
miRNA:   3'- -UUGUCCCCGGAGGUGGGCCGGGAGUU- -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.