miRNA display CGI


Results 1 - 20 of 88 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
25522 3' -60.7 NC_005337.1 + 1890 0.68 0.586548
Target:  5'- cUAUGCGCacuCGGCg-GCCUCCGGgaacCCCGc -3'
miRNA:   3'- uGUAUGCG---GCCGagCGGAGGCU----GGGC- -5'
25522 3' -60.7 NC_005337.1 + 2656 0.7 0.453943
Target:  5'- ---gGCGCCGGC-CGCCUCC-ACgCUGa -3'
miRNA:   3'- uguaUGCGGCCGaGCGGAGGcUG-GGC- -5'
25522 3' -60.7 NC_005337.1 + 6983 0.66 0.704231
Target:  5'- aGCGggugACGCCGuGCUUGUCcauggcgcggacgUCCGcGCCCGc -3'
miRNA:   3'- -UGUa---UGCGGC-CGAGCGG-------------AGGC-UGGGC- -5'
25522 3' -60.7 NC_005337.1 + 9762 0.66 0.675791
Target:  5'- gGCcgGCGCCGGgUUGgCaCCGGCCUc -3'
miRNA:   3'- -UGuaUGCGGCCgAGCgGaGGCUGGGc -5'
25522 3' -60.7 NC_005337.1 + 10705 0.69 0.537727
Target:  5'- cCAggaGCUcgGGCUCGuCCUCCGACCgGc -3'
miRNA:   3'- uGUaugCGG--CCGAGC-GGAGGCUGGgC- -5'
25522 3' -60.7 NC_005337.1 + 12046 0.68 0.586548
Target:  5'- gGCGUGCGgucguCCGGCgugcgCGCCgacacgUCCGcGCCCGc -3'
miRNA:   3'- -UGUAUGC-----GGCCGa----GCGG------AGGC-UGGGC- -5'
25522 3' -60.7 NC_005337.1 + 15865 0.66 0.665908
Target:  5'- gGCGgcuCGCCGGcCUCGCUcaugaccggguUCCGcuGCCCc -3'
miRNA:   3'- -UGUau-GCGGCC-GAGCGG-----------AGGC--UGGGc -5'
25522 3' -60.7 NC_005337.1 + 16688 0.68 0.547394
Target:  5'- aGCAUcucGCGCaCGGCg-GCCUCCGcuGCCgGg -3'
miRNA:   3'- -UGUA---UGCG-GCCGagCGGAGGC--UGGgC- -5'
25522 3' -60.7 NC_005337.1 + 18727 0.69 0.518577
Target:  5'- uGCGgcGCGCUGGC--GCCUCUGACCgGa -3'
miRNA:   3'- -UGUa-UGCGGCCGagCGGAGGCUGGgC- -5'
25522 3' -60.7 NC_005337.1 + 19700 0.69 0.512884
Target:  5'- gGCGUacaGCGCCGGCgccaucugcggccgCGCCUCCacgauGGCCUc -3'
miRNA:   3'- -UGUA---UGCGGCCGa-------------GCGGAGG-----CUGGGc -5'
25522 3' -60.7 NC_005337.1 + 21790 0.69 0.499703
Target:  5'- cCGUGCuGCgGGC-CGCCUUCGACgCGc -3'
miRNA:   3'- uGUAUG-CGgCCGaGCGGAGGCUGgGC- -5'
25522 3' -60.7 NC_005337.1 + 29674 0.73 0.310652
Target:  5'- cGCGgugGCGCCGuauGCUCGCCgCCGACgaCCGg -3'
miRNA:   3'- -UGUa--UGCGGC---CGAGCGGaGGCUG--GGC- -5'
25522 3' -60.7 NC_005337.1 + 33524 0.7 0.481139
Target:  5'- cCGUGCGCCGGCUgcacgCGUCgucgCCGACgUGc -3'
miRNA:   3'- uGUAUGCGGCCGA-----GCGGa---GGCUGgGC- -5'
25522 3' -60.7 NC_005337.1 + 34665 0.68 0.586548
Target:  5'- ---cACGCUGGUgcucUCGCCgUCCaGGCCCa -3'
miRNA:   3'- uguaUGCGGCCG----AGCGG-AGG-CUGGGc -5'
25522 3' -60.7 NC_005337.1 + 34854 0.68 0.557115
Target:  5'- uAUAUGCGgCGGCgCGCCauccUCCGACgUGa -3'
miRNA:   3'- -UGUAUGCgGCCGaGCGG----AGGCUGgGC- -5'
25522 3' -60.7 NC_005337.1 + 35670 0.68 0.556141
Target:  5'- aGC-UGCGCCaggaggaGGC-CGCCUUCGACCgGc -3'
miRNA:   3'- -UGuAUGCGG-------CCGaGCGGAGGCUGGgC- -5'
25522 3' -60.7 NC_005337.1 + 37013 0.66 0.705204
Target:  5'- cACGUcgaaGCGCCGGCUCaCCgcCCGACa-- -3'
miRNA:   3'- -UGUA----UGCGGCCGAGcGGa-GGCUGggc -5'
25522 3' -60.7 NC_005337.1 + 39937 0.67 0.646073
Target:  5'- uACGUGCG-CGGCgggCGCCUCgCGcgggcGCUCGa -3'
miRNA:   3'- -UGUAUGCgGCCGa--GCGGAG-GC-----UGGGC- -5'
25522 3' -60.7 NC_005337.1 + 40730 0.66 0.665908
Target:  5'- -gGUGCGCCGGaCUCGCgUCucugggugcaCGGCCg- -3'
miRNA:   3'- ugUAUGCGGCC-GAGCGgAG----------GCUGGgc -5'
25522 3' -60.7 NC_005337.1 + 42419 0.76 0.214498
Target:  5'- -uGUGCGCCGGCUUcggcgugaGCUUCCGGgCCGa -3'
miRNA:   3'- ugUAUGCGGCCGAG--------CGGAGGCUgGGC- -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.