miRNA display CGI


Results 1 - 18 of 18 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
12383 3' -56 NC_003324.1 + 49967 0.66 0.687706
Target:  5'- aGCAugGCgaucggcgCUGCCCUGaUGGGGGCa -3'
miRNA:   3'- -UGUugUGgaa-----GGCGGGACaGCUCCUG- -5'
12383 3' -56 NC_003324.1 + 7311 0.66 0.644046
Target:  5'- cCAACACCgugaccgucgUUCCGCgCgc-CGAGGGCa -3'
miRNA:   3'- uGUUGUGG----------AAGGCGgGacaGCUCCUG- -5'
12383 3' -56 NC_003324.1 + 25240 0.66 0.641853
Target:  5'- -gAGCACCUggCCGCCCUuaaagccaaggCGAcGGGCg -3'
miRNA:   3'- ugUUGUGGAa-GGCGGGAca---------GCU-CCUG- -5'
12383 3' -56 NC_003324.1 + 36868 0.67 0.611151
Target:  5'- uCAGCGCCUUCCGCU----UGGGGAa -3'
miRNA:   3'- uGUUGUGGAAGGCGGgacaGCUCCUg -5'
12383 3' -56 NC_003324.1 + 34065 0.67 0.595839
Target:  5'- cACGGCGCCcaaugccagcggcUCCGCCCUGUCcauGaGACc -3'
miRNA:   3'- -UGUUGUGGa------------AGGCGGGACAGcu-C-CUG- -5'
12383 3' -56 NC_003324.1 + 29675 0.67 0.589294
Target:  5'- uGCAGgACgUUCUGCCCgagGaaUCGAGcGACg -3'
miRNA:   3'- -UGUUgUGgAAGGCGGGa--C--AGCUC-CUG- -5'
12383 3' -56 NC_003324.1 + 1674 0.68 0.578416
Target:  5'- cCAGCAUCUcgCgCGCCUUGUCGAGa-- -3'
miRNA:   3'- uGUUGUGGAa-G-GCGGGACAGCUCcug -5'
12383 3' -56 NC_003324.1 + 56509 0.68 0.567581
Target:  5'- cCGGCACCUUCCccucUCCUGcaaUGGGGGCg -3'
miRNA:   3'- uGUUGUGGAAGGc---GGGACa--GCUCCUG- -5'
12383 3' -56 NC_003324.1 + 56090 0.68 0.556798
Target:  5'- cACGGCGCgcUCCGCCCUGU-GGGuGCg -3'
miRNA:   3'- -UGUUGUGgaAGGCGGGACAgCUCcUG- -5'
12383 3' -56 NC_003324.1 + 24081 0.68 0.556798
Target:  5'- aGCAGC-CCUaccgCCGCCCUaccagcgcGUCGAGcGCg -3'
miRNA:   3'- -UGUUGuGGAa---GGCGGGA--------CAGCUCcUG- -5'
12383 3' -56 NC_003324.1 + 18389 0.68 0.546075
Target:  5'- gGCAGCGCUgaCgGaCCCUG-CGAGGAa -3'
miRNA:   3'- -UGUUGUGGaaGgC-GGGACaGCUCCUg -5'
12383 3' -56 NC_003324.1 + 25496 0.69 0.514335
Target:  5'- cGCAACGCCUUCUaCCC----GAGGACg -3'
miRNA:   3'- -UGUUGUGGAAGGcGGGacagCUCCUG- -5'
12383 3' -56 NC_003324.1 + 30493 0.69 0.500813
Target:  5'- aGCAGCuggcccaaucggaaGCC-UCCGUauCCUgGUCGAGGGCg -3'
miRNA:   3'- -UGUUG--------------UGGaAGGCG--GGA-CAGCUCCUG- -5'
12383 3' -56 NC_003324.1 + 16034 0.7 0.443549
Target:  5'- cCAACGCCcaCCGCCUUGUCGAu--- -3'
miRNA:   3'- uGUUGUGGaaGGCGGGACAGCUccug -5'
12383 3' -56 NC_003324.1 + 14607 0.7 0.443549
Target:  5'- -gAGCGCCag-CGCCUUGUCGcGGACg -3'
miRNA:   3'- ugUUGUGGaagGCGGGACAGCuCCUG- -5'
12383 3' -56 NC_003324.1 + 47174 0.7 0.433883
Target:  5'- uGCcGCACCUcgCCGCaCgUGUCGGGGuCu -3'
miRNA:   3'- -UGuUGUGGAa-GGCG-GgACAGCUCCuG- -5'
12383 3' -56 NC_003324.1 + 48875 0.75 0.213073
Target:  5'- -uGGCACCUUCCGgCUUGUCGAagaaauacgaagGGGCg -3'
miRNA:   3'- ugUUGUGGAAGGCgGGACAGCU------------CCUG- -5'
12383 3' -56 NC_003324.1 + 39685 1.1 0.000759
Target:  5'- aACAACACCUUCCGCCCUGUCGAGGACg -3'
miRNA:   3'- -UGUUGUGGAAGGCGGGACAGCUCCUG- -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.